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    TFCP2L1 transcription factor CP2 like 1 [ Homo sapiens (human) ]

    Gene ID: 29842, updated on 17-Jun-2024

    Summary

    Official Symbol
    TFCP2L1provided by HGNC
    Official Full Name
    transcription factor CP2 like 1provided by HGNC
    Primary source
    HGNC:HGNC:17925
    See related
    Ensembl:ENSG00000115112 MIM:609785; AllianceGenome:HGNC:17925
    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
    LBP9; CRTR1; LBP-9
    Summary
    Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasm and membrane. Predicted to be part of chromatin. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in kidney (RPKM 25.1), salivary gland (RPKM 23.9) and 10 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See TFCP2L1 in Genome Data Viewer
    Location:
    2q14.2
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (121216587..121285202, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (121651879..121720501, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (121974163..122042778, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373587 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:121828403-121828966 Neighboring gene VISTA enhancer hs522 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:121889594-121890232 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:121890689-121891190 Neighboring gene uncharacterized LOC105373588 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:121954553-121955451 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:121957297-121957798 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:121957799-121958298 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:121972077-121972577 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:121974845-121975346 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:122003829-122004330 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11920 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:122091915-122092848 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:122094177-122094762 Neighboring gene ribosomal protein S17 pseudogene 7 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:122109698-122109870 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16463 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:122140378-122140878 Neighboring gene cytoplasmic linker associated protein 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr2:122187059-122188258 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:122205649-122205872 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16464 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11922 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16465 Neighboring gene CLASP1 antisense RNA 1 Neighboring gene RNA, U4atac small nuclear

    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
    Identification of a susceptibility locus in STAT4 for Behçet's disease in Han Chinese in a genome-wide association study.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    involved_in cell morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cytoplasm organization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in determination of adult lifespan IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in epithelial cell maturation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of growth IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in salivary gland development IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    part_of chromatin ISA
    Inferred from Sequence Alignment
    more info
     
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    transcription factor CP2-like protein 1
    Names
    CP2-related transcriptional repressor 1
    CRTR-1
    transcription factor LBP-9

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_014553.3NP_055368.1  transcription factor CP2-like protein 1

      See identical proteins and their annotated locations for NP_055368.1

      Status: VALIDATED

      Source sequence(s)
      AC013399, AC079988, BC064698, BM055156
      Consensus CDS
      CCDS2134.1
      UniProtKB/Swiss-Prot
      Q4ZG43, Q9NZI6
      Related
      ENSP00000263707.5, ENST00000263707.6
      Conserved Domains (2) summary
      cd09590
      Location:310376
      SAM_LBP9; SAM domain of LBP9 transcriptional factors
      pfam04516
      Location:34237
      CP2; CP2 transcription factor

    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_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      121216587..121285202 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017003902.2XP_016859391.1  transcription factor CP2-like protein 1 isoform X1

    2. XM_047444020.1XP_047299976.1  transcription factor CP2-like protein 1 isoform X5

    3. XM_047444021.1XP_047299977.1  transcription factor CP2-like protein 1 isoform X5

    4. XM_017003903.1XP_016859392.1  transcription factor CP2-like protein 1 isoform X2

    5. XM_017003905.2XP_016859394.1  transcription factor CP2-like protein 1 isoform X4

      UniProtKB/TrEMBL
      Q5JV87
    6. XM_017003904.2XP_016859393.1  transcription factor CP2-like protein 1 isoform X3

      UniProtKB/TrEMBL
      Q5JV87
      Conserved Domains (1) summary
      pfam04516
      Location:34237
      CP2; CP2 transcription factor

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      121651879..121720501 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054341547.1XP_054197522.1  transcription factor CP2-like protein 1 isoform X1

    2. XM_054341551.1XP_054197526.1  transcription factor CP2-like protein 1 isoform X5

    3. XM_054341552.1XP_054197527.1  transcription factor CP2-like protein 1 isoform X5

    4. XM_054341548.1XP_054197523.1  transcription factor CP2-like protein 1 isoform X2

    5. XM_054341550.1XP_054197525.1  transcription factor CP2-like protein 1 isoform X4

      UniProtKB/TrEMBL
      Q5JV87
    6. XM_054341549.1XP_054197524.1  transcription factor CP2-like protein 1 isoform X3

      UniProtKB/TrEMBL
      Q5JV87