Gene Gene information from NCBI Gene database.
Entrez ID 6938
Gene name Transcription factor 12
Gene symbol TCF12
Synonyms (NCBI Gene)
CRS3HEBHH26HTF4HsT17266TCF-12bHLHb20p64
Chromosome 15
Chromosome location 15q21.3
Summary The protein encoded by this gene is a member of the basic helix-loop-helix (bHLH) E-protein family that recognizes the consensus binding site (E-box) CANNTG. This encoded protein is expressed in many tissues, among them skeletal muscle, thymus, B- and T-c
SNPs SNP information provided by dbSNP.
20
SNP ID Visualize variation Clinical significance Consequence
rs398122381 C>G Pathogenic Coding sequence variant, intron variant, stop gained
rs554037047 C>A,T Likely-pathogenic Intron variant, coding sequence variant, missense variant, stop gained
rs758543580 C>T Pathogenic Stop gained, coding sequence variant
rs878853094 G>A Likely-pathogenic Intron variant
rs886037636 C>G Pathogenic Coding sequence variant, stop gained
miRNA miRNA information provided by mirtarbase database.
411
miRTarBase ID miRNA Experiments Reference
MIRT005845 hsa-miR-204-5p Luciferase reporter assayMicroarrayqRT-PCR 21282569
MIRT005845 hsa-miR-204-5p ImmunofluorescenceMicroarrayqRT-PCRWestern blot 22523078
MIRT006464 hsa-miR-211-5p ImmunofluorescenceMicroarrayqRT-PCRWestern blot 22523078
MIRT005845 hsa-miR-204-5p ImmunofluorescenceMicroarrayqRT-PCRWestern blot 22523078
MIRT006464 hsa-miR-211-5p ImmunofluorescenceMicroarrayqRT-PCRWestern blot 22523078
Transcription factors Transcription factors information provided by TRRUST V2 database.
1
Transcription factor Regulation Reference
CBFA2T3 Unknown 18456661
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
45
GO ID Ontology Definition Evidence Reference
GO:0000785 Component Chromatin IBA
GO:0000785 Component Chromatin IDA 21828274
GO:0000785 Component Chromatin ISA
GO:0000976 Function Transcription cis-regulatory region binding IDA 11802795
GO:0000978 Function RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
600480 11623 ENSG00000140262
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q99081
Protein name Transcription factor 12 (TCF-12) (Class B basic helix-loop-helix protein 20) (bHLHb20) (DNA-binding protein HTF4) (E-box-binding protein) (Transcription factor HTF-4)
Protein function Transcriptional regulator. Involved in the initiation of neuronal differentiation. Activates transcription by binding to the E box (5'-CANNTG-3') (By similarity). May be involved in the functional network that regulates the development of the Gn
PDB 2KNH , 4JOL
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00010 HLH 578 631 Helix-loop-helix DNA-binding domain Domain
Tissue specificity TISSUE SPECIFICITY: Expressed in several tissues and cell types including skeletal muscle, thymus, and a B-cell line.
Sequence
MNPQQQRMAAIGTDKELSDLLDFSAMFSPPVNSGKTRPTTLGSSQFSGSGIDERGGTTSW
GTSGQPSPSYDSSRGFTDSPHYSDHLNDSRLGAHEGLSPTPFMNSNLMGKTSERGSFSLY
SRDTGLPGCQSSLLRQDLGLGSPAQLSSSGKPGTAYYSFSATSSRRRPLHDSAALDPLQA
KKVRKVPPGLPSSVYAPSPNSDDFNRESPSYPSPKPPTSMFASTFFMQDGTHNSSDLWSS
SNGMSQPGFGGILGTSTSHMSQSSSYGNLHSHDRLSYPPHSVSPTDINTSLPPMSSFHRG
STSSSPYVAASHTPPINGSDSILGTRGNAAGSSQTGDALGKALASIYSPDHTSSSFPSNP
STPVGSPSPLTGTSQWPRPGGQAPSSPSYENSLHSLQSRMEDRLDRLDDAIHVLRNHAVG
PSTSLPAGHSDIHSLLGPSHNAPIGSLNSNYGGSSLVASSRSASMVGTHREDSVSLNGNH
SVLSSTVTTSSTDLNHKTQENYRGGLQSQSGTVVTTEIKTENKEKDENLHEPPSSDDMKS
DDESSQKDIKVSSRGRTSSTNEDEDLNPEQKIEREKERRMANNARERLRVRDINEAFKEL
GRMCQLHLKSEKPQTKLLILHQAVAVILSLE
QQVRERNLNPKAACLKRREEEKVSAVSAE
PPTTLPGTHPGLSETTNPMGHM
Sequence length 682
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  Reactome
    Myogenesis
RUNX1 regulates transcription of genes involved in differentiation of HSCs
NGF-stimulated transcription
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
48
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Autism spectrum disorder Pathogenic rs1555412971, rs760718747 RCV005410905
RCV005410925
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Coronal craniosynostosis Likely pathogenic rs1566992093 RCV000678478
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Craniosynostosis syndrome Pathogenic; Likely pathogenic rs2152060519, rs1597730335, rs1597816045 RCV001849585
RCV000984625
RCV000984624
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Delayed speech and language development Likely pathogenic rs2551278986 RCV002468807
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ANDROGENETIC ALOPECIA GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ATTENTION DEFICIT HYPERACTIVITY DISORDER GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTISM SPECTRUM DISORDERS Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Acrocephaly Acrocephaly CTD_human_DG 23354436
★☆☆☆☆
Found in Text Mining only
Acute lymphocytic leukemia Lymphocytic Leukemia BEFREE 11588043
★☆☆☆☆
Found in Text Mining only
Alopecia Alopecia GWASCAT_DG 28196072
★☆☆☆☆
Found in Text Mining only
Anaplastic Oligodendroglioma Anaplastic Oligodendroglioma BEFREE 26068201
★☆☆☆☆
Found in Text Mining only
Aphasia Aphasia Pubtator 25871887 Associate
★☆☆☆☆
Found in Text Mining only
Autism Spectrum Disorder Autism Pubtator 31595719 Associate
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Brachycephaly Brachycephaly ORPHANET_DG 23354436
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Brachycephaly Brachycephaly CTD_human_DG 23354436
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Brachycephaly Brachycephaly HPO_DG
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Brachydactyly Brachydactyly HPO_DG
★☆☆☆☆
Found in Text Mining only