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

Gene ID: 10732, updated on 1-Jun-2020

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
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
Expression
Broad expression in testis (RPKM 22.8), thyroid (RPKM 7.1) and 19 other tissues See more
Orthologs

Genomic context

See TCFL5 in Genome Data Viewer
Location:
20q13.33
Exon count:
9
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (62841005..62861822, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (61472467..61493115, complement)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene OGFR antisense RNA 1 Neighboring gene MRG domain binding protein Neighboring gene opioid growth factor receptor Neighboring gene collagen type IX alpha 3 chain Neighboring gene diphthamide biosynthesis 3 pseudogene 1 Neighboring gene uncharacterized LOC105372717 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

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
NHGRI GWA Catalog

HIV-1 interactions

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

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC46135

Gene Ontology Provided by GOA

Process Evidence Code Pubs
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
regulation of cell differentiation IEP
Inferred from Expression Pattern
more info
PubMed 
regulation of cell proliferation IEP
Inferred from Expression Pattern
more info
PubMed 
regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
spermatogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
spermatogenesis IEP
Inferred from Expression Pattern
more info
PubMed 
transcription by RNA polymerase II TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
male germ cell nucleus IEA
Inferred from Electronic Annotation
more info
 
nuclear chromatin ISA
Inferred from Sequence Alignment
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

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)

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_001301726.2NP_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
    Q86TP4
  2. NM_006602.4NP_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
    Q9UL49
    UniProtKB/TrEMBL
    Q86TP4
    Related
    ENSP00000334294.3, ENST00000335351.8

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p13 Primary Assembly

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

mRNA and Protein(s)

  1. XM_024451813.1XP_024307581.1  transcription factor-like 5 protein isoform X8

  2. XM_005260185.4XP_005260242.1  transcription factor-like 5 protein isoform X3

  3. XM_024451812.1XP_024307580.1  transcription factor-like 5 protein isoform X7

  4. XM_024451808.1XP_024307576.1  transcription factor-like 5 protein isoform X1

    Related
    ENSP00000217162.5, ENST00000217162.5
  5. XM_011528497.3XP_011526799.1  transcription factor-like 5 protein isoform X2

  6. XM_024451810.1XP_024307578.1  transcription factor-like 5 protein isoform X5

  7. XM_024451809.1XP_024307577.1  transcription factor-like 5 protein isoform X4

  8. XM_024451811.1XP_024307579.1  transcription factor-like 5 protein isoform X6

RNA

  1. XR_002958454.1 RNA Sequence

  2. XR_002958453.1 RNA Sequence

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