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TFPT TCF3 fusion partner [ Homo sapiens (human) ]

Gene ID: 29844, updated on 8-Dec-2022

Summary

Official Symbol
TFPTprovided by HGNC
Official Full Name
TCF3 fusion partnerprovided by HGNC
Primary source
HGNC:HGNC:13630
See related
Ensembl:ENSG00000105619 MIM:609519; AllianceGenome:HGNC:13630
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
FB1; amida; INO80F
Summary
Predicted to enable DNA binding activity and protein kinase binding activity. Involved in apoptotic signaling pathway. Located in nucleoplasm. Part of Ino80 complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in brain (RPKM 11.2), prostate (RPKM 8.4) and 25 other tissues See more
Orthologs
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Genomic context

See TFPT in Genome Data Viewer
Location:
19q13.42
Exon count:
7
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (54107020..54115657, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (57185717..57194354, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (54610327..54619037, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene T cell-interacting, activating receptor on myeloid cells 1 Neighboring gene osteoclast associated Ig-like receptor Neighboring gene NADH:ubiquinone oxidoreductase subunit A3 Neighboring gene PRPF31 antisense RNA 1 Neighboring gene pre-mRNA processing factor 31 Neighboring gene CCR4-NOT transcription complex subunit 3 Neighboring gene uncharacterized LOC102724273

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

EBI GWAS Catalog

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein kinase binding IEA
Inferred from Electronic Annotation
more info
 
enables protein-containing complex binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in DNA recombination IEA
Inferred from Electronic Annotation
more info
 
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
 
involved_in apoptotic signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in apoptotic signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
involved_in chromatin remodeling IDA
Inferred from Direct Assay
more info
PubMed 
involved_in male gonad development IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of DNA repair ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of apoptotic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of telomere maintenance in response to DNA damage ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of DNA repair ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of DNA replication IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of DNA strand elongation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of cell cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of chromosome organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of embryonic development ISO
Inferred from Sequence Orthology
more info
 
involved_in telomere maintenance ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
part_of Ino80 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of Ino80 complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in actin filament IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
TCF3 fusion partner
Names
INO80 complex subunit F
TCF3 (E2A) fusion partner (in childhood Leukemia)
amida, partner of the E2A

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_001321792.2NP_001308721.1  TCF3 fusion partner isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC245052, BC001728
    Consensus CDS
    CCDS82396.1
    UniProtKB/Swiss-Prot
    P0C1Z6
    Related
    ENSP00000375638.1, ENST00000391758.5
  2. NM_013342.4NP_037474.1  TCF3 fusion partner isoform 1

    See identical proteins and their annotated locations for NP_037474.1

    Status: VALIDATED

    Source sequence(s)
    AF052052, BI820344, BQ027375
    Consensus CDS
    CCDS12878.1
    UniProtKB/Swiss-Prot
    G5E9B5, P0C1Z6
    UniProtKB/TrEMBL
    A0A024R4Q5
    Related
    ENSP00000375639.1, ENST00000391759.6

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    54107020..54115657 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005278261.2XP_005278318.1  TCF3 fusion partner isoform X1

    See identical proteins and their annotated locations for XP_005278318.1

Reference GRCh38.p14 ALT_REF_LOCI_1

Genomic

  1. NW_003571054.1 Reference GRCh38.p14 ALT_REF_LOCI_1

    Range
    81440..90150 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_2

Genomic

  1. NW_003571055.2 Reference GRCh38.p14 ALT_REF_LOCI_2

    Range
    81440..90150 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_3

Genomic

  1. NW_003571056.2 Reference GRCh38.p14 ALT_REF_LOCI_3

    Range
    81440..90150 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_4

Genomic

  1. NW_003571057.2 Reference GRCh38.p14 ALT_REF_LOCI_4

    Range
    81440..90150 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_5

Genomic

  1. NW_003571058.2 Reference GRCh38.p14 ALT_REF_LOCI_5

    Range
    81440..90150 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_6

Genomic

  1. NW_003571059.2 Reference GRCh38.p14 ALT_REF_LOCI_6

    Range
    81440..90150 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_7

Genomic

  1. NW_003571060.1 Reference GRCh38.p14 ALT_REF_LOCI_7

    Range
    81440..90150 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_8

Genomic

  1. NW_003571061.2 Reference GRCh38.p14 ALT_REF_LOCI_8

    Range
    81440..90150 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_9

Genomic

  1. NT_187693.1 Reference GRCh38.p14 ALT_REF_LOCI_9

    Range
    81440..90150 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    57185717..57194354 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)