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

Gene ID: 10732, updated on 17-Jun-2024

Summary

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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, Apr 2022]
Expression
Broad expression in testis (RPKM 22.8), thyroid (RPKM 7.1) and 19 other tissues See more
Orthologs
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Genomic context

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See TCFL5 in Genome Data Viewer
Location:
20q13.33
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (62841005..62861822, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (64640566..64661385, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (61472357..61493174, complement)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13120 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61435960-61436865 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13124 Neighboring gene OGFR antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13125 Neighboring gene MRG domain binding protein Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61446582-61447268 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61447957-61448642 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61449331-61450016 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61450017-61450704 Neighboring gene opioid growth factor receptor Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61454586-61455274 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61455275-61455962 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13126 Neighboring gene collagen type IX alpha 3 chain Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61461792-61462748 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61462749-61463704 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61463705-61464661 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61464662-61465617 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr20:61467141-61468340 Neighboring gene Sharpr-MPRA regulatory region 13411 Neighboring gene diphthamide biosynthesis 3 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13127 Neighboring gene uncharacterized LOC105372717 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61492967-61493621 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61506686-61507340 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61507341-61507994 Neighboring gene Sharpr-MPRA regulatory region 11652 Neighboring gene MPRA-validated peak4302 silencer Neighboring gene ADP ribosylation factor 4 pseudogene 2 Neighboring gene small nucleolar RNA, H/ACA box 117 Neighboring gene death inducer-obliterator 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Isoform-specific effects of transcription factor TCFL5 on the pluripotency-related genes SOX2 and KLF4 in colorectal cancer development. Galán-Martínez J, et al. Mol Oncol, 2022 May. PMID 34623757, Free PMC Article
  2. Dominant T- and B-cell epitopes in an autoantigen linked to Chagas' disease. Gironès N, et al. J Clin Invest, 2001 Apr. PMID 11306602, Free PMC Article
  3. PCR based detection of HPV 16 and 18 genotypes in normal oral mucosa of tobacco users and non-users. Pattanshetty S, et al. Biotech Histochem, 2014 Aug. PMID 24588599
  4. Cloning of TCFL5 encoding a novel human basic helix-loop-helix motif protein that is specifically expressed in primary spermatocytes at the pachytene stage. Maruyama O, et al. Cytogenet Cell Genet, 1998. PMID 9763657
  5. Protein expression of the transcription factors DMRT1, TCLF5, and OCT4 in selected germ cell neoplasms of the testis. Roth LM, et al. Hum Pathol, 2018 Dec. PMID 30067948

See all (18) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. TCFL5 knockdown sensitizes DLBCL to doxorubicin treatment via regulation of GPX4.
    Title: TCFL5 knockdown sensitizes DLBCL to doxorubicin treatment via regulation of GPX4.
  2. 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.
  3. 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.
  4. 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.
  5. 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.
  6. 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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

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

Homology

Clone Names

  • MGC46135

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
part_of 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)

  1. 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

  2. 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_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    62841005..62861822 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

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

    UniProtKB/TrEMBL
    F8W9A4

  3. XM_024451812.2 → XP_024307580.1  transcription factor-like 5 protein isoform X8

  4. XM_047439840.1 → XP_047295796.1  transcription factor-like 5 protein isoform X11

  5. XM_011528497.4 → XP_011526799.1  transcription factor-like 5 protein isoform X2

    UniProtKB/TrEMBL
    F8W9A4

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

    UniProtKB/TrEMBL
    F8W9A4
    Related
    ENSP00000217162.5, ENST00000217162.5

  7. XM_024451810.2 → XP_024307578.1  transcription factor-like 5 protein isoform X6

    UniProtKB/TrEMBL
    F8W9A4

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

    UniProtKB/TrEMBL
    F8W9A4

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

    UniProtKB/TrEMBL
    F8W9A4

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

    UniProtKB/TrEMBL
    F8W9A4

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

RNA

  1. XR_007067444.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    64640566..64661385 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

  2. XM_054322855.1 → XP_054178830.1  transcription factor-like 5 protein isoform X3

    UniProtKB/TrEMBL
    F8W9A4

  3. XM_054322860.1 → XP_054178835.1  transcription factor-like 5 protein isoform X8

  4. XM_054322864.1 → XP_054178839.1  transcription factor-like 5 protein isoform X11

  5. XM_054322854.1 → XP_054178829.1  transcription factor-like 5 protein isoform X2

    UniProtKB/TrEMBL
    F8W9A4

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

    UniProtKB/TrEMBL
    F8W9A4

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

    UniProtKB/TrEMBL
    F8W9A4

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

    UniProtKB/TrEMBL
    F8W9A4

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

    UniProtKB/TrEMBL
    F8W9A4

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

    UniProtKB/TrEMBL
    F8W9A4

  11. XM_054322862.1 → XP_054178837.1  transcription factor-like 5 protein isoform X12

  12. XM_054322863.1 → XP_054178838.1  transcription factor-like 5 protein isoform X10

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9UL49.2 GenPept UniProtKB/Swiss-Prot:Q9UL49

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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