TCFL5 transcription factor like 5 [Homo sapiens (human)] - Gene

Summary

Official Symbol: TCFL5provided by HGNC
Official Full Name: transcription factor like 5provided by HGNC
Primary source: HGNC:HGNC:11646
See related: Ensembl:ENSG00000101190 MIM:604745; AllianceGenome:HGNC:11646
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: CHA; Figlb; SOSF1; E2BP-1; bHLHe82
Summary: Enables DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including negative regulation of transcription by RNA polymerase II; regulation of cell population proliferation; and spermatogenesis. Located in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
Expression: Broad expression in testis (RPKM 22.8), thyroid (RPKM 7.1) and 19 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 20q13.33

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	20	NC_000020.11 (62841005..62861822, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	20	NC_060944.1 (64640566..64661385, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	20	NC_000020.10 (61472357..61493174, complement)

Chromosome 20 - NC_000020.11 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?

TCFL5 knockdown sensitizes DLBCL to doxorubicin treatment via regulation of GPX4.
Title: TCFL5 knockdown sensitizes DLBCL to doxorubicin treatment via regulation of GPX4.
Isoform-specific effects of transcription factor TCFL5 on the pluripotency-related genes SOX2 and KLF4 in colorectal cancer development.
Title: Isoform-specific effects of transcription factor TCFL5 on the pluripotency-related genes SOX2 and KLF4 in colorectal cancer development.
Report differential expression of TCFL5 in normal human spermatogenesis, testicular mixed germ cell-sex cord stromal tumor, spermatocytic tumor, and seminoma.
Title: Protein expression of the transcription factors DMRT1, TCLF5, and OCT4 in selected germ cell neoplasms of the testis.
HPVs16 and 18 commonly are present in normal oral mucosa and emphasize the importance of distinguishing clinical
Title: PCR based detection of HPV 16 and 18 genotypes in normal oral mucosa of tobacco users and non-users.
A protein encoded by this locus was found to be differentially expressed in postmortem brains from patients with atypical frontotemporal lobar degeneration.
Title: Proteomic analysis identifies dysfunction in cellular transport, energy, and protein metabolism in different brain regions of atypical frontotemporal lobar degeneration.
Cha is a new bHLH transcription factor that negatively regulates upstream transcription factor-dependent transcription
Title: Cha, a basic helix-loop-helix transcription factor involved in the regulation of upstream stimulatory factor activity.

Submit: New GeneRIF Correction

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

EBI GWAS Catalog

Description
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. 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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Replication interactions

Interaction	Pubs
Knockdown of transcription factor-like 5 (basic helix-loop-helix) (TCFL5) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells	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

SHGC-35186 (e-PCR)
- UniSTS:83479

D8S2279 (e-PCR)
- UniSTS:473907

RH64147 (e-PCR)
- UniSTS:87878

TCFL5 (e-PCR)
- UniSTS:505936

SHGC-34346 (e-PCR)
- UniSTS:67410

D10S16 (e-PCR)
- UniSTS:155756

RH103064 (e-PCR)
- UniSTS:97398

RH36237 (e-PCR)
- UniSTS:84091

D11S3114 (e-PCR)
- UniSTS:152207

RH66084 (e-PCR)
- UniSTS:85200

RH80031 (e-PCR)
- UniSTS:91103

RH16374 (e-PCR)
- UniSTS:87796

RH38988 (e-PCR)
- UniSTS:91637

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	TAS Traceable Author Statement more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	ISA Inferred from Sequence Alignment more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info
enables sequence-specific double-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of cell differentiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in regulation of cell population proliferation	IEP Inferred from Expression Pattern more info	PubMed
involved_in spermatogenesis	IEP Inferred from Expression Pattern more info	PubMed
involved_in transcription by RNA polymerase II	TAS Traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in chromatin	ISA Inferred from Sequence Alignment more info
located_in male germ cell nucleus	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: transcription factor-like 5 protein

Names: HPV-16 E2-binding protein 1; cha transcription factor; spermatogenesis- and oogenesis-specific bHLH-containing protein 1; transcription factor-like 5 (basic helix-loop-helix)

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_001301726.2 → NP_001288655.1 transcription factor-like 5 protein isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site and contains an alternate exon in the 3' coding region, which results in the use of a distinct stop codon, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1.

Source sequence(s)

AL035669, BC046933, BC065520, BU632218

UniProtKB/TrEMBL

F8W9A4
NM_006602.4 → NP_006593.2 transcription factor-like 5 protein isoform 1

See identical proteins and their annotated locations for NP_006593.2

Status: VALIDATED

Description

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

Source sequence(s)

AB012124, AL035669, BC046933, CA419503

Consensus CDS

CCDS13506.1

UniProtKB/Swiss-Prot

O94771, Q9BYW0, Q9UL49

UniProtKB/TrEMBL

F8W9A4

Related

ENSP00000334294.3, ENST00000335351.8

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_000020.11 Reference GRCh38.p14 Primary Assembly

Range

62841005..62861822 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_024451813.2 → XP_024307581.1 transcription factor-like 5 protein isoform X9
XM_005260185.5 → XP_005260242.1 transcription factor-like 5 protein isoform X3

UniProtKB/TrEMBL

F8W9A4
XM_024451812.2 → XP_024307580.1 transcription factor-like 5 protein isoform X8
XM_047439840.1 → XP_047295796.1 transcription factor-like 5 protein isoform X11
XM_011528497.4 → XP_011526799.1 transcription factor-like 5 protein isoform X2

UniProtKB/TrEMBL

F8W9A4
XM_024451808.2 → XP_024307576.1 transcription factor-like 5 protein isoform X1

UniProtKB/TrEMBL

F8W9A4

Related

ENSP00000217162.5, ENST00000217162.5
XM_024451810.2 → XP_024307578.1 transcription factor-like 5 protein isoform X6

UniProtKB/TrEMBL

F8W9A4
XM_047439838.1 → XP_047295794.1 transcription factor-like 5 protein isoform X5

UniProtKB/TrEMBL

F8W9A4
XM_024451809.2 → XP_024307577.1 transcription factor-like 5 protein isoform X4

UniProtKB/TrEMBL

F8W9A4
XM_024451811.2 → XP_024307579.1 transcription factor-like 5 protein isoform X7

UniProtKB/TrEMBL

F8W9A4
XM_047439839.1 → XP_047295795.1 transcription factor-like 5 protein isoform X10

RNA

XR_007067444.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

NC_060944.1 Alternate T2T-CHM13v2.0

Range

64640566..64661385 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054322861.1 → XP_054178836.1 transcription factor-like 5 protein isoform X9
XM_054322855.1 → XP_054178830.1 transcription factor-like 5 protein isoform X3

UniProtKB/TrEMBL

F8W9A4
XM_054322860.1 → XP_054178835.1 transcription factor-like 5 protein isoform X8
XM_054322864.1 → XP_054178839.1 transcription factor-like 5 protein isoform X11
XM_054322854.1 → XP_054178829.1 transcription factor-like 5 protein isoform X2

UniProtKB/TrEMBL

F8W9A4
XM_054322853.1 → XP_054178828.1 transcription factor-like 5 protein isoform X1

UniProtKB/TrEMBL

F8W9A4
XM_054322858.1 → XP_054178833.1 transcription factor-like 5 protein isoform X6

UniProtKB/TrEMBL

F8W9A4
XM_054322857.1 → XP_054178832.1 transcription factor-like 5 protein isoform X5

UniProtKB/TrEMBL

F8W9A4
XM_054322856.1 → XP_054178831.1 transcription factor-like 5 protein isoform X4

UniProtKB/TrEMBL

F8W9A4
XM_054322859.1 → XP_054178834.1 transcription factor-like 5 protein isoform X7

UniProtKB/TrEMBL

F8W9A4
XM_054322862.1 → XP_054178837.1 transcription factor-like 5 protein isoform X12
XM_054322863.1 → XP_054178838.1 transcription factor-like 5 protein isoform X10