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TFCP2 transcription factor CP2 [ Homo sapiens (human) ]

Gene ID: 7024, updated on 5-Jul-2015
Official Symbol
TFCP2provided by HGNC
Official Full Name
transcription factor CP2provided by HGNC
Primary source
HGNC:HGNC:11748
See related
Ensembl:ENSG00000135457; HPRD:01790; MIM:189889; Vega:OTTHUMG00000169621
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LSF; SEF; LBP1C; LSF1D; TFCP2C
Summary
This gene encodes a transcription factor that binds the alpha-globin promoter and activates transcription of the alpha-globin gene. The encoded protein regulates erythroid gene expression, plays a role in the transcriptional switch of globin gene promoters, and it activates many other cellular and viral gene promoters. The gene product interacts with certain inflammatory response factors, and polymorphisms of this gene may be involved in the pathogenesis of Alzheimer's disease. [provided by RefSeq, Mar 2010]
Orthologs
See TFCP2 in Epigenomics, MapViewer
Location:
12q13
Exon count:
15
Annotation release Status Assembly Chr Location
107 current GRCh38.p2 (GCF_000001405.28) 12 NC_000012.12 (51093756..51173143, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (51487539..51566926, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene solute carrier family 11 (proton-coupled divalent metal ion transporter), member 2 Neighboring gene RNA, U7 small nuclear 39 pseudogene Neighboring gene LETM1 domain containing 1 Neighboring gene cysteine-serine-rich nuclear protein 2 Neighboring gene ribosomal protein L35a pseudogene 29 Neighboring gene prohibitin pseudogene 19 Neighboring gene POU class 6 homeobox 1 Neighboring gene DAZ associated protein 2 Neighboring gene small cell adhesion glycoprotein

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Protein interactions

Protein Gene Interaction Pubs
Tat tat YY1 and LSF transcription factors cooperatively recruit histone deacetylase 1 (HDAC1) to the HIV-1 LTR promoter, thereby inhibiting transcription and Tat activation of the promoter PubMed

Go to the HIV-1, Human Interaction Database

Products Interactant Other Gene Complex Source Pubs Description

Markers

Potential readthrough

Included gene: SMAGP

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding TAS
Traceable Author Statement
more info
PubMed 
protein C-terminus binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
sequence-specific DNA binding transcription factor activity TAS
Traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
regulation of transcription from RNA polymerase II promoter TAS
Traceable Author Statement
more info
PubMed 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
Preferred Names
alpha-globin transcription factor CP2
Names
SAA3 enhancer factor

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.

Genomic

  1. NG_029908.1 RefSeqGene

    Range
    5001..84388
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001173452.1NP_001166923.1  alpha-globin transcription factor CP2 isoform 2

    See identical proteins and their annotated locations for NP_001166923.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
    Source sequence(s)
    AC087884, AK291264, BX479302
    UniProtKB/Swiss-Prot
    Q12800
    Conserved Domains (2) summary
    cd09589
    Location:329395
    SAM_TFCP2; SAM domain of TFCP2 transcription factors
    pfam04516
    Location:37262
    CP2; CP2 transcription factor
  2. NM_001173453.1NP_001166924.1  alpha-globin transcription factor CP2 isoform 3

    See identical proteins and their annotated locations for NP_001166924.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon in the central coding region, and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 3), compared to isoform 1.
    Source sequence(s)
    AC087884, BX479302, U03495
    Consensus CDS
    CCDS55827.1
    UniProtKB/Swiss-Prot
    Q12800
    Conserved Domains (2) summary
    cd09589
    Location:278344
    SAM_TFCP2; SAM domain of TFCP2 transcription factors
    pfam04516
    Location:37211
    CP2; CP2 transcription factor
  3. NM_005653.4NP_005644.2  alpha-globin transcription factor CP2 isoform 1

    See identical proteins and their annotated locations for NP_005644.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC087884, AC139768, BC003634, BX479302
    Consensus CDS
    CCDS8808.1
    UniProtKB/TrEMBL
    A0A024R120
    UniProtKB/Swiss-Prot
    Q12800
    Related
    ENSP00000257915, OTTHUMP00000241709, ENST00000257915, OTTHUMT00000405119
    Conserved Domains (2) summary
    cd09589
    Location:329395
    SAM_TFCP2; SAM domain of TFCP2 transcription factors
    pfam04516
    Location:37262
    CP2; CP2 transcription factor

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 107

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

Reference GRCh38.p2 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p2 Primary Assembly

    Range
    51093756..51173143
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate CHM1_1.1

Genomic

  1. NC_018923.2 Alternate CHM1_1.1

    Range
    51453744..51533155
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)