CIITA class II major histocompatibility complex transactivator [Homo sapiens (human)] - Gene

Summary

Official Symbol: CIITAprovided by HGNC
Official Full Name: class II major histocompatibility complex transactivatorprovided by HGNC
Primary source: HGNC:HGNC:7067
See related: Ensembl:ENSG00000179583 MIM:600005; AllianceGenome:HGNC:7067
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: C2TA; NLRA; MHC2D1; MHC2TA; CIITAIV
Summary: This gene encodes a protein with an acidic transcriptional activation domain, 4 LRRs (leucine-rich repeats) and a GTP binding domain. The protein is located in the nucleus and acts as a positive regulator of class II major histocompatibility complex gene transcription, and is referred to as the "master control factor" for the expression of these genes. The protein also binds GTP and uses GTP binding to facilitate its own transport into the nucleus. Once in the nucleus it does not bind DNA but rather uses an intrinsic acetyltransferase (AT) activity to act in a coactivator-like fashion. Mutations in this gene have been associated with bare lymphocyte syndrome type II (also known as hereditary MHC class II deficiency or HLA class II-deficient combined immunodeficiency), increased susceptibility to rheumatoid arthritis, multiple sclerosis, and possibly myocardial infarction. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2013]
Expression: Broad expression in spleen (RPKM 12.7), lymph node (RPKM 11.9) and 19 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 16p13.13

Exon count:: 26

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	16	NC_000016.10 (10866206..10943021)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	16	NC_060940.1 (10902173..10978992)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	16	NC_000016.9 (10971055..11030251)

Chromosome 16 - NC_000016.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Tissue-specific circular RNA induction during human fetal development
Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
BioProject: PRJNA270632
Publication: PMID 26076956
Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The intrinsically disordered transcriptional activation domain of CIITA is functionally tuneable by single substitutions: An exception or a new paradigm?
Title: The intrinsically disordered transcriptional activation domain of CIITA is functionally tuneable by single substitutions: An exception or a new paradigm?
The NLR member CIITA: Master controller of adaptive and intrinsic immunity and unexpected tool in cancer immunotherapy.
Title: The NLR member CIITA: Master controller of adaptive and intrinsic immunity and unexpected tool in cancer immunotherapy.
NLRC5-CIITA Fusion Protein as an Effective Inducer of MHC-I Expression and Antitumor Immunity.
Title: NLRC5-CIITA Fusion Protein as an Effective Inducer of MHC-I Expression and Antitumor Immunity.
Cancer-specific T helper shared and neo-epitopes uncovered by expression of the MHC class II master regulator CIITA.
Title: Cancer-specific T helper shared and neo-epitopes uncovered by expression of the MHC class II master regulator CIITA.
Novel missense variant of CIITA contributing to endometriosis.
Title: Novel missense variant of CIITA contributing to endometriosis.
CIITA gene polymorphism (rs3087456) in systemic lupus erythematosus and rheumatoid arthritis: A population-based cohort study.
Title: CIITA gene polymorphism (rs3087456) in systemic lupus erythematosus and rheumatoid arthritis: A population-based cohort study.
Inactivating mutations of class II transactivator (CIITA) gene in gastric and colorectal cancers.
Title: Inactivating mutations of class II transactivator (CIITA) gene in gastric and colorectal cancers.
HLA-DRB1 genes and the expression dynamics of HLA CIITA determine the susceptibility to T2DM.
Title: HLA-DRB1 genes and the expression dynamics of HLA CIITA determine the susceptibility to T2DM.
Genetic variants in class II transactivator are associated with chronic hepatitis B virus infection in the Han Chinese population.
Title: Genetic variants in class II transactivator are associated with chronic hepatitis B virus infection in the Han Chinese population.
The MHC Class II Transactivator CIITA: Not (Quite) the Odd-One-Out Anymore among NLR Proteins.
Title: The MHC Class II Transactivator CIITA: Not (Quite) the Odd-One-Out Anymore among NLR Proteins.

Submit: New GeneRIF Correction See all GeneRIFs (168)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Associated conditions

Description	Tests
MHC class II deficiency MedGen: C5447452 GeneReviews: Not available	Compare labs
Rheumatoid arthritis MedGen: C0003873 OMIM: 180300 GeneReviews: Not available	Compare labs

EBI GWAS Catalog

Description
Genome-wide association identifies multiple ulcerative colitis susceptibility loci. EBI GWAS Catalog EBI GWAS CatalogPubMed
Multiple common variants for celiac disease influencing immune gene expression. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Envelope surface glycoprotein gp120	env	CIITA-mediated enhancement of HIV-1 infection is gp120/gp41/CD4-dependent and occurs at the early steps in the infection cycle	PubMed
Envelope transmembrane glycoprotein gp41	env	CIITA-mediated enhancement of HIV-1 infection is gp120/gp41/CD4-dependent and occurs at the early steps in the infection cycle	PubMed
Gag-Pol	gag-pol	CIITA increases the viral protease activity through increased HIV-1 Gag-Pol levels	PubMed
Pr55(Gag)	gag	CIITA enhancement of HIV-1 Gag processing is through the viral protease activity	PubMed
	gag	Gag production is significantly increased by fusing HIV-1-infected CD4- and CXCR4-expressing rat fibroblasts with uninfected human T-, B-, and macrophage cell lines. This process is regulated by HP68 and MHC class II transactivator (CIITA)	PubMed
Tat	tat	HIV-1 Tat transactivation is inhibited by the amino acids 64-285 in CIITA in U937 cells	PubMed
	tat	The HLA class II transcriptional activator, CIITA, inhibits HIV-1 Tat and virus replication	PubMed
	tat	HIV-1 Tat inhibits CIITA by competing with CIITA for binding to P-TEFb	PubMed
	tat	HIV-1 Tat downregulates expression of MHC class II genes in antigen-presenting cells (APC) by inhibiting the transactivator of MHC class II genes, CIITA	PubMed
capsid	gag	p24 production is significantly increased by fusing HIV-1-infected CD4- and CXCR4-expressing rat fibroblasts with uninfected human T-, B-, and macrophage cell lines. This process is regulated by HP68 and MHC class II transactivator (CIITA)	PubMed
retropepsin	gag-pol	CIITA enhancement of HIV-1 Gag processing is through the viral protease activity, which results from increased levels of HIV-1 Gag-Pol by CIITA	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH65129 (e-PCR)
- UniSTS:92434

GDB:434012 (e-PCR)
- UniSTS:157204

PMC83901P1 (e-PCR)
- UniSTS:273434

RH79123 (e-PCR)
- UniSTS:15185

PMC133907P1 (e-PCR)
- UniSTS:270680

PMC133907P2 (e-PCR)
- UniSTS:270681

PMC133907P3 (e-PCR)
- UniSTS:270682

PMC133907P4 (e-PCR)
- UniSTS:270683

PMC133916P2 (e-PCR)
- UniSTS:270687

D1S1423 (e-PCR)
- UniSTS:149619

PMC316580P8 (e-PCR)
- UniSTS:273015

SHGC-67307 (e-PCR)
- UniSTS:89991

SHGC-60649 (e-PCR)
- UniSTS:37017

PMC125964P1 (e-PCR)
- UniSTS:270517

STS-U18288 (e-PCR)
- UniSTS:29661

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables 3-phosphoinositide-dependent protein kinase activity	IEA Inferred from Electronic Annotation more info
enables AMP-activated protein kinase activity	IEA Inferred from Electronic Annotation more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
NOT enables DNA binding	TAS Traceable Author Statement more info	PubMed
enables DNA-binding transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables DNA-dependent protein kinase activity	IEA Inferred from Electronic Annotation more info
enables GTP binding	IEA Inferred from Electronic Annotation more info
enables Rho-dependent protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables acyltransferase activity	IEA Inferred from Electronic Annotation more info
enables eukaryotic translation initiation factor 2alpha kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AS1 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AS121 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AT120 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AXS139 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2BS14 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2BS36 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S10 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S28 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S57 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T11 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T3 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T45 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T6 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H4S1 kinase activity	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein serine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables ribosomal protein S6 kinase activity	IEA Inferred from Electronic Annotation more info
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed
enables transcription coactivator activity	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in immune response	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of collagen biosynthetic process	IC Inferred by Curator more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of viral entry into host cell	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of MHC class I biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of MHC class I biosynthetic process	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of MHC class II biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of MHC class II biosynthetic process	IC Inferred by Curator more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to antibiotic	IDA Inferred from Direct Assay more info	PubMed
involved_in response to type II interferon	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in PML body	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IDA Inferred from Direct Assay more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info
located_in nucleoplasm	TAS Traceable Author Statement more info

General protein information

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Preferred Names: MHC class II transactivator

Names: MHC class II transactivator type I; MHC class II transactivator type III; NLR family, acid domain containing; nucleotide-binding oligomerization domain, leucine rich repeat and acid domain containing

NP_000237.2

EC 2.7.11.1

NP_001273331.1

EC 2.7.11.1

NP_001273332.1

EC 2.7.11.1

NP_001366259.1

EC 2.7.11.1

NP_001366260.1

EC 2.7.11.1

NP_001366261.1

EC 2.7.11.1

NP_001366262.1

EC 2.7.11.1

NP_001366263.1

EC 2.7.11.1

XP_006720943.2

EC 2.7.11.1

XP_011520786.1

EC 2.7.11.1

XP_011520787.1

EC 2.7.11.1

XP_011520788.1

EC 2.7.11.1

XP_011520792.2

EC 2.7.11.1

XP_011520793.1

EC 2.7.11.1

XP_047290070.1

EC 2.7.11.1

XP_047290071.1

EC 2.7.11.1

XP_047290072.1

EC 2.7.11.1

XP_047290073.1

EC 2.7.11.1

XP_047290074.1

EC 2.7.11.1

XP_047290075.1

EC 2.7.11.1

XP_047290076.1

EC 2.7.11.1

XP_047290078.1

EC 2.7.11.1

XP_047290079.1

EC 2.7.11.1

XP_047290080.1

EC 2.7.11.1

XP_047290081.1

EC 2.7.11.1

XP_047290082.1

EC 2.7.11.1

XP_047290083.1

EC 2.7.11.1

XP_047290084.1

EC 2.7.11.1

XP_054236303.1

EC 2.7.11.1

XP_054236304.1

EC 2.7.11.1

XP_054236305.1

EC 2.7.11.1

XP_054236306.1

EC 2.7.11.1

XP_054236307.1

EC 2.7.11.1

XP_054236308.1

EC 2.7.11.1

XP_054236309.1

EC 2.7.11.1

XP_054236310.1

EC 2.7.11.1

XP_054236311.1

EC 2.7.11.1

XP_054236312.1

EC 2.7.11.1

XP_054236313.1

EC 2.7.11.1

XP_054236314.1

EC 2.7.11.1

XP_054236315.1

EC 2.7.11.1

XP_054236316.1

EC 2.7.11.1

XP_054236317.1

EC 2.7.11.1

XP_054236318.1

EC 2.7.11.1

XP_054236319.1

EC 2.7.11.1

XP_054236320.1

EC 2.7.11.1

XP_054236321.1

EC 2.7.11.1

XP_054236322.1

EC 2.7.11.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

NG_009628.1 RefSeqGene

Range

5001..52786

Download

GenBank, FASTA, Sequence Viewer (Graphics), LRG_49

mRNA and Protein(s)

NM_000246.4 → NP_000237.2 MHC class II transactivator isoform 2

See identical proteins and their annotated locations for NP_000237.2

Status: REVIEWED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (2) is 1 aa shorter compared to isoform 1.

Source sequence(s)

AC133065, KF459560

Consensus CDS

CCDS10544.1

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

UniProtKB/TrEMBL

A0A0B4J1S1

Related

ENSP00000316328.8, ENST00000324288.14

Conserved Domains (4) summary

cd00116
Location:789 → 1114

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00031
Location:989 → 1016

LRR_1; leucine-rich repeat [structural motif]

sd00034
Location:1071 → 1101

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:414 → 583

NACHT; NACHT domain
NM_001286402.1 → NP_001273331.1 MHC class II transactivator isoform 1

See identical proteins and their annotated locations for NP_001273331.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AC133065, BC007406, BE247223, BM193016

Consensus CDS

CCDS73826.1

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

UniProtKB/TrEMBL

A0A087X2I7

Related

ENSP00000485010.1, ENST00000618327.4

Conserved Domains (4) summary

cd00116
Location:790 → 1115

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00031
Location:990 → 1017

LRR_1; leucine-rich repeat [structural motif]

sd00034
Location:1072 → 1102

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:415 → 584

NACHT; NACHT domain
NM_001286403.2 → NP_001273332.1 MHC class II transactivator isoform 3

Status: REVIEWED

Description

Transcript Variant: This variant (3) uses two alternate splice junctions and lacks two alternate coding exons compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

AC133065, AY084054, BC007406, BE247223, BM193016

Consensus CDS

CCDS66943.1

UniProtKB/Swiss-Prot

P33076

Related

ENSP00000371257.5, ENST00000381835.9

Conserved Domains (2) summary

cd00116
Location:299 → 530

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00034
Location:402 → 429

LRR_AMN1; leucine-rich repeat [structural motif]
NM_001379330.1 → NP_001366259.1 MHC class II transactivator isoform 4

Status: REVIEWED

Source sequence(s)

AC133065

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

Conserved Domains (4) summary

cd00116
Location:741 → 1066

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00031
Location:941 → 968

LRR_1; leucine-rich repeat [structural motif]

sd00034
Location:1023 → 1053

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:366 → 535

NACHT; NACHT domain
NM_001379331.1 → NP_001366260.1 MHC class II transactivator isoform 5

Status: REVIEWED

Source sequence(s)

AC133065

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

Conserved Domains (4) summary

cd00116
Location:740 → 1065

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00031
Location:940 → 967

LRR_1; leucine-rich repeat [structural motif]

sd00034
Location:1022 → 1052

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:365 → 534

NACHT; NACHT domain
NM_001379332.1 → NP_001366261.1 MHC class II transactivator isoform 1

Status: REVIEWED

Source sequence(s)

AC133065, KF459560

Consensus CDS

CCDS73826.1

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

UniProtKB/TrEMBL

A0A087X2I7

Conserved Domains (4) summary

cd00116
Location:790 → 1115

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00031
Location:990 → 1017

LRR_1; leucine-rich repeat [structural motif]

sd00034
Location:1072 → 1102

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:415 → 584

NACHT; NACHT domain
NM_001379333.1 → NP_001366262.1 MHC class II transactivator isoform 2

Status: REVIEWED

Source sequence(s)

AC133065, KF459560

Consensus CDS

CCDS10544.1

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

UniProtKB/TrEMBL

A0A0B4J1S1

Conserved Domains (4) summary

cd00116
Location:789 → 1114

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00031
Location:989 → 1016

LRR_1; leucine-rich repeat [structural motif]

sd00034
Location:1071 → 1101

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:414 → 583

NACHT; NACHT domain
NM_001379334.1 → NP_001366263.1 MHC class II transactivator isoform 6

Status: REVIEWED

Source sequence(s)

AC133065, KF459560

UniProtKB/TrEMBL

Q66X48

Conserved Domains (3) summary

cd00116
Location:766 → 1091

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00034
Location:963 → 990

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:391 → 560

NACHT; NACHT domain

RNA

NR_104444.2 RNA Sequence

Status: REVIEWED

Description

Transcript Variant: This variant (4) uses an alternate splice junction and lacks an alternate exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AC133065, AY084054, BC007406, BE247223, BM193016, U31931, X74301

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000016.10 Reference GRCh38.p14 Primary Assembly

Range

10866206..10943021

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011522485.3 → XP_011520787.1 MHC class II transactivator isoform X1

See identical proteins and their annotated locations for XP_011520787.1

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

Conserved Domains (3) summary

cd00116
Location:888 → 1213

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00034
Location:1085 → 1112

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:513 → 682

NACHT; NACHT domain
XM_011522484.4 → XP_011520786.1 MHC class II transactivator isoform X1

See identical proteins and their annotated locations for XP_011520786.1

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

Conserved Domains (3) summary

cd00116
Location:888 → 1213

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00034
Location:1085 → 1112

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:513 → 682

NACHT; NACHT domain
XM_006720880.4 → XP_006720943.2 MHC class II transactivator isoform X1

See identical proteins and their annotated locations for XP_006720943.2

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

Conserved Domains (3) summary

cd00116
Location:888 → 1213

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00034
Location:1085 → 1112

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:513 → 682

NACHT; NACHT domain
XM_047434123.1 → XP_047290079.1 MHC class II transactivator isoform X5

UniProtKB/TrEMBL

Q66X48
XM_011522486.3 → XP_011520788.1 MHC class II transactivator isoform X2

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

Conserved Domains (3) summary

cd00116
Location:888 → 1149

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00031
Location:1088 → 1115

LRR_1; leucine-rich repeat [structural motif]

pfam05729
Location:513 → 682

NACHT; NACHT domain
XM_011522491.3 → XP_011520793.1 MHC class II transactivator isoform X7

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

Conserved Domains (2) summary

cd00116
Location:888 → 1119

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

pfam05729
Location:513 → 682

NACHT; NACHT domain
XM_047434115.1 → XP_047290071.1 MHC class II transactivator isoform X4

UniProtKB/TrEMBL

Q66X48
XM_047434118.1 → XP_047290074.1 MHC class II transactivator isoform X6

UniProtKB/TrEMBL

Q66X48
XM_047434114.1 → XP_047290070.1 MHC class II transactivator isoform X3

UniProtKB/TrEMBL

Q66X48
XM_047434120.1 → XP_047290076.1 MHC class II transactivator isoform X8

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

UniProtKB/TrEMBL

A0A087X2I7
XM_047434122.1 → XP_047290078.1 MHC class II transactivator isoform X9

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4

UniProtKB/TrEMBL

A0A0B4J1S1
XM_047434128.1 → XP_047290084.1 MHC class II transactivator isoform X11

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4
XM_047434126.1 → XP_047290082.1 MHC class II transactivator isoform X10

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4
XM_047434127.1 → XP_047290083.1 MHC class II transactivator isoform X11

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4
XM_047434117.1 → XP_047290073.1 MHC class II transactivator isoform X5

UniProtKB/TrEMBL

Q66X48
XM_047434116.1 → XP_047290072.1 MHC class II transactivator isoform X5

UniProtKB/TrEMBL

Q66X48
XM_047434124.1 → XP_047290080.1 MHC class II transactivator isoform X4

UniProtKB/TrEMBL

Q66X48
XM_047434125.1 → XP_047290081.1 MHC class II transactivator isoform X4

UniProtKB/TrEMBL

Q66X48
XM_047434119.1 → XP_047290075.1 MHC class II transactivator isoform X3

UniProtKB/TrEMBL

Q66X48
XM_011522490.3 → XP_011520792.2 MHC class II transactivator isoform X3

UniProtKB/TrEMBL

Q66X48

RNA

XR_001751904.2 RNA Sequence
XR_007064880.1 RNA Sequence
XR_007064879.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

NC_060940.1 Alternate T2T-CHM13v2.0

Range

10902173..10978992

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054380331.1 → XP_054236306.1 MHC class II transactivator isoform X2

UniProtKB/TrEMBL

Q66X48
XM_054380339.1 → XP_054236314.1 MHC class II transactivator isoform X7

UniProtKB/TrEMBL

Q66X48
XM_054380330.1 → XP_054236305.1 MHC class II transactivator isoform X1

UniProtKB/TrEMBL

Q66X48
XM_054380329.1 → XP_054236304.1 MHC class II transactivator isoform X1

UniProtKB/TrEMBL

Q66X48
XM_054380328.1 → XP_054236303.1 MHC class II transactivator isoform X1

UniProtKB/TrEMBL

Q66X48
XM_054380342.1 → XP_054236317.1 MHC class II transactivator isoform X5

UniProtKB/TrEMBL

Q66X48
XM_054380333.1 → XP_054236308.1 MHC class II transactivator isoform X4

UniProtKB/TrEMBL

Q66X48
XM_054380336.1 → XP_054236311.1 MHC class II transactivator isoform X6

UniProtKB/TrEMBL

Q66X48
XM_054380332.1 → XP_054236307.1 MHC class II transactivator isoform X3

UniProtKB/TrEMBL

Q66X48
XM_054380340.1 → XP_054236315.1 MHC class II transactivator isoform X8

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4
XM_054380341.1 → XP_054236316.1 MHC class II transactivator isoform X9

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4
XM_054380347.1 → XP_054236322.1 MHC class II transactivator isoform X11

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4
XM_054380345.1 → XP_054236320.1 MHC class II transactivator isoform X10

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4
XM_054380346.1 → XP_054236321.1 MHC class II transactivator isoform X11

UniProtKB/Swiss-Prot

A0N0N9, D3DUG0, E9PFE0, P33076, Q29675, Q8SNB8, Q96KL4
XM_054380335.1 → XP_054236310.1 MHC class II transactivator isoform X5

UniProtKB/TrEMBL

Q66X48
XM_054380334.1 → XP_054236309.1 MHC class II transactivator isoform X5

UniProtKB/TrEMBL

Q66X48
XM_054380343.1 → XP_054236318.1 MHC class II transactivator isoform X4

UniProtKB/TrEMBL

Q66X48
XM_054380344.1 → XP_054236319.1 MHC class II transactivator isoform X4

UniProtKB/TrEMBL

Q66X48
XM_054380337.1 → XP_054236312.1 MHC class II transactivator isoform X3

UniProtKB/TrEMBL

Q66X48
XM_054380338.1 → XP_054236313.1 MHC class II transactivator isoform X3

UniProtKB/TrEMBL

Q66X48