Cic capicua transcriptional repressor [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Cicprovided by MGI
Official Full Name: capicua transcriptional repressorprovided by MGI
Primary source: MGI:MGI:1918972
See related: Ensembl:ENSMUSG00000005442 AllianceGenome:MGI:1918972
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: mKIAA0306; 1200010B10Rik
Summary: Enables chromatin binding activity. Involved in several processes, including learning or memory; negative regulation of DNA-templated transcription; and social behavior. Acts upstream of or within lung alveolus development and negative regulation of transcription by RNA polymerase II. Part of protein-containing complex. Is expressed in several structures, including central nervous system; early conceptus; female reproductive system; hemolymphoid system; and urinary system. Used to study disease of mental health. Human ortholog(s) of this gene implicated in autosomal dominant intellectual developmental disorder 45. Orthologous to human CIC (capicua transcriptional repressor). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in thymus adult (RPKM 35.3), adrenal adult (RPKM 24.3) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 7 A3; 7 13.73 cM

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	7	NC_000073.7 (24967054..24993584)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	7	NC_000073.6 (25267658..25294159)

Chromosome 7 - NC_000073.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Postnatal regulation of B-1a cell development and survival by the CIC-PER2-BHLHE41 axis.
Title: Postnatal regulation of B-1a cell development and survival by the CIC-PER2-BHLHE41 axis.
Regulation of positive and negative selection and TCR signaling during thymic T cell development by capicua.
Title: Regulation of positive and negative selection and TCR signaling during thymic T cell development by capicua.
Capicua regulates the development of adult-born neurons in the hippocampus.
Title: Capicua regulates the development of adult-born neurons in the hippocampus.
Altered Capicua expression drives regional Purkinje neuron vulnerability through ion channel gene dysregulation in spinocerebellar ataxia type 1.
Title: Altered Capicua expression drives regional Purkinje neuron vulnerability through ion channel gene dysregulation in spinocerebellar ataxia type 1.
CIC is a critical regulator of neuronal differentiation.
Title: CIC is a critical regulator of neuronal differentiation.
Derepression of Etv5 increases Hobit expression in Cic -deficient CD8+ T cells and consequently enhances CD8+ T memory cell formation in liver, thereby leading to liver injury.
Title: The Capicua/ETS Translocation Variant 5 Axis Regulates Liver-Resident Memory CD8(+) T-Cell Development and the Pathogenesis of Liver Injury.
CIC is a transcriptional repressor of genes regulated by MAPK signaling.
Title: The Tumor Suppressor CIC Directly Regulates MAPK Pathway Genes via Histone Deacetylation.
these results identify Cic as an important regulator of cell fate in neurodevelopment and oligodendroglioma, and suggest that its loss contributes to oligodendroglioma by promoting proliferation and an oligodendrocyte precursor cells -like identity via Ets overactivity.
Title: Capicua regulates neural stem cell proliferation and lineage specification through control of Ets factors.
maintains T-cell homeostasis and negatively regulates follicular helper T cell development and autoimmunity
Title: Capicua deficiency induces autoimmunity and promotes follicular helper T cell differentiation via derepression of ETV5.
Loss of CIC causes T cell lymphoblastic leukemia/lymphoma.
Title: Loss of Capicua alters early T cell development and predisposes mice to T cell lymphoblastic leukemia/lymphoma.

Submit: New GeneRIF Correction See all GeneRIFs (16)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2) 1 citation
Gene trapped (1)
Targeted (6) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in brain development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in learning	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within lung alveolus development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within lung alveolus development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in memory	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in social behavior	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: protein capicua homolog

Names: capicua homolog

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.

mRNA and Protein(s)

NM_001302811.1 → NP_001289740.1 protein capicua homolog isoform CIC-L

See identical proteins and their annotated locations for NP_001289740.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in the 5' UTR, uses an alternate promoter, an alternate start codon, and has multiple differences in the coding region compared to variant 1. It encodes isoform CIC-L (PMID: 17190598), which has a distinct N-terminus and is longer than isoform CIC-S.

Source sequence(s)

AC156992, AK147535, BF455793

Consensus CDS

CCDS80678.1

UniProtKB/Swiss-Prot

Q3UH79, Q3UHP4, Q6PDJ8, Q8CGE4, Q8CHH0, Q924A2, Q9CW61

Related

ENSMUSP00000132351.2, ENSMUST00000169266.8

Conserved Domains (3) summary

COG5648
Location:1063 → 1222

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01388
Location:1106 → 1177

SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...

pfam16090
Location:253 → 342

DUF4819; Domain of unknown function (DUF4819)
NM_027882.4 → NP_082158.2 protein capicua homolog isoform CIC-S

See identical proteins and their annotated locations for NP_082158.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the shorter isoform (CIC-S, PMID: 17190598).

Source sequence(s)

AC156992, AK147276, BF455793

Consensus CDS

CCDS52146.1

UniProtKB/Swiss-Prot

Q924A2

Related

ENSMUSP00000126659.2, ENSMUST00000163320.8

Conserved Domains (2) summary

COG5648
Location:156 → 315

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01388
Location:199 → 270

SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000073.7 Reference GRCm39 C57BL/6J

Range

24967054..24993584

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011250697.4 → XP_011248999.1 protein capicua homolog isoform X2

See identical proteins and their annotated locations for XP_011248999.1

Conserved Domains (4) summary

PHA03247
Location:1671 → 2172

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:1063 → 1222

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01388
Location:1106 → 1177

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...

pfam16090
Location:253 → 342

DUF4819; Domain of unknown function (DUF4819)
XM_017312309.2 → XP_017167798.1 protein capicua homolog isoform X3

Conserved Domains (4) summary

PHA03247
Location:1671 → 2171

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:1063 → 1222

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01388
Location:1106 → 1177

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...

pfam16090
Location:253 → 342

DUF4819; Domain of unknown function (DUF4819)
XM_011250696.3 → XP_011248998.1 protein capicua homolog isoform X2

See identical proteins and their annotated locations for XP_011248998.1

Conserved Domains (4) summary

PHA03247
Location:1671 → 2172

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:1063 → 1222

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01388
Location:1106 → 1177

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...

pfam16090
Location:253 → 342

DUF4819; Domain of unknown function (DUF4819)
XM_036153438.1 → XP_036009331.1 protein capicua homolog isoform X2

Conserved Domains (4) summary

PHA03247
Location:1671 → 2172

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:1063 → 1222

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01388
Location:1106 → 1177

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...

pfam16090
Location:253 → 342

DUF4819; Domain of unknown function (DUF4819)
XM_017312310.1 → XP_017167799.1 protein capicua homolog isoform X1

Conserved Domains (4) summary

PHA03247
Location:1671 → 2172

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:1063 → 1222

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01388
Location:1106 → 1177

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...

pfam16090
Location:253 → 342

DUF4819; Domain of unknown function (DUF4819)
XM_030242991.1 → XP_030098851.1 protein capicua homolog isoform X9

Conserved Domains (3) summary

PHA03247
Location:609 → 1110

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:1 → 160

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01388
Location:44 → 115

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
XM_036153442.1 → XP_036009335.1 protein capicua homolog isoform X10

Conserved Domains (3) summary

PHA03247
Location:609 → 1109

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:1 → 160

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01388
Location:44 → 115

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
XM_036153441.1 → XP_036009334.1 protein capicua homolog isoform X8

Related

ENSMUST00000167379.2

Conserved Domains (4) summary

PHA03247
Location:742 → 1243

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:134 → 293

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

PRK07764
Location:7 → 117

PRK07764; DNA polymerase III subunits gamma and tau; Validated

cd01388
Location:177 → 248

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
XM_006540368.2 → XP_006540431.1 protein capicua homolog isoform X5

Conserved Domains (4) summary

PHA03247
Location:764 → 1265

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:156 → 315

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

PRK07764
Location:29 → 139

PRK07764; DNA polymerase III subunits gamma and tau; Validated

cd01388
Location:199 → 270

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
XM_036153439.1 → XP_036009332.1 protein capicua homolog isoform X6

UniProtKB/TrEMBL

E9QP01

Related

ENSMUSP00000005578.7, ENSMUST00000005578.13

Conserved Domains (4) summary

PHA03247
Location:764 → 1265

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:156 → 315

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

PRK07764
Location:29 → 139

PRK07764; DNA polymerase III subunits gamma and tau; Validated

cd01388
Location:199 → 270

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
XM_036153440.1 → XP_036009333.1 protein capicua homolog isoform X7

Conserved Domains (4) summary

PHA03247
Location:764 → 1264

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:156 → 315

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

PRK07764
Location:29 → 139

PRK07764; DNA polymerase III subunits gamma and tau; Validated

cd01388
Location:199 → 270

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
XM_006540367.1 → XP_006540430.1 protein capicua homolog isoform X4

Conserved Domains (4) summary

PHA03247
Location:765 → 1266

PHA03247; large tegument protein UL36; Provisional

COG5648
Location:157 → 316

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

PRK07764
Location:30 → 140

PRK07764; DNA polymerase III subunits gamma and tau; Validated

cd01388
Location:200 → 271

SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001110131.1: Suppressed sequence

Description

NM_001110131.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
NM_001110132.1: Suppressed sequence

Description

NM_001110132.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.