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    BEND4 BEN domain containing 4 [ Homo sapiens (human) ]

    Gene ID: 389206, updated on 10-Dec-2024

    Summary

    Official Symbol
    BEND4provided by HGNC
    Official Full Name
    BEN domain containing 4provided by HGNC
    Primary source
    HGNC:HGNC:23815
    See related
    Ensembl:ENSG00000188848 AllianceGenome:HGNC:23815
    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
    CCDC4
    Summary
    Predicted to enable DNA binding activity. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in testis (RPKM 7.9), prostate (RPKM 2.2) and 4 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See BEND4 in Genome Data Viewer
    Location:
    4p13
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (42110853..42152655, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (42084790..42126591, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (42112870..42154672, complement)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr4:41983504-41984703 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21511 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:41992428-41992647 Neighboring gene DDB1 and CUL4 associated factor 4 like 1 Neighboring gene solute carrier family 30 member 9 Neighboring gene ATPase Na+/K+ transporting subunit beta 1 pseudogene 1 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:42138326-42138861 Neighboring gene VISTA enhancer hs847 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:42153146-42153989 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15391 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:42263210-42263710 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21513 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:42287227-42287728 Neighboring gene uncharacterized LOC124900697 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:42295847-42296786 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:42296787-42297726 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21514 Neighboring gene uncharacterized LOC105374428 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:42304402-42304934 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr4:42312337-42312842 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr4:42315325-42316524 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:42316933-42317480 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:42317481-42318028 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21516 Neighboring gene Sharpr-MPRA regulatory region 6384

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Clone Names

    • FLJ35632, FLJ43965, MGC157807, MGC157808

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding  

    General protein information

    Preferred Names
    BEN domain-containing protein 4
    Names
    coiled-coil domain containing 4
    coiled-coil domain-containing protein 4

    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_001159547.2NP_001153019.1  BEN domain-containing protein 4 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region, compared to variant 1, that results in a frameshift. It encodes isoform b which has a shorter and distinct C-terminus compared to isoform a.
      Source sequence(s)
      AA757195, AB126829
      UniProtKB/TrEMBL
      A0A0C4DGA9
      Related
      ENSP00000421160.1, ENST00000504360.5
      Conserved Domains (1) summary
      smart00338
      Location:325362
      BRLZ; basic region leucin zipper
    2. NM_207406.4NP_997289.2  BEN domain-containing protein 4 isoform a

      See identical proteins and their annotated locations for NP_997289.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
      Source sequence(s)
      AA757195, AB126828
      Consensus CDS
      CCDS47048.1
      UniProtKB/Swiss-Prot
      A1A5D6, A1A5D7, C9JQZ5, Q58A26, Q58A27, Q6ZU67
      UniProtKB/TrEMBL
      A0A0C4DGA9
      Related
      ENSP00000421169.1, ENST00000502486.6
      Conserved Domains (2) summary
      pfam10523
      Location:414489
      BEN; BEN domain
      cl21462
      Location:325362
      bZIP; Basic leucine zipper (bZIP) domain of bZIP transcription factors: a DNA-binding and dimerization domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      42110853..42152655 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017008185.2XP_016863674.1  BEN domain-containing protein 4 isoform X1

      UniProtKB/Swiss-Prot
      A1A5D6, A1A5D7, C9JQZ5, Q58A26, Q58A27, Q6ZU67
      UniProtKB/TrEMBL
      A0A0C4DGA9
      Conserved Domains (2) summary
      pfam10523
      Location:414489
      BEN; BEN domain
      cl21462
      Location:325362
      bZIP; Basic leucine zipper (bZIP) domain of bZIP transcription factors: a DNA-binding and dimerization domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      42084790..42126591 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054349972.1XP_054205947.1  BEN domain-containing protein 4 isoform X1

      UniProtKB/Swiss-Prot
      A1A5D6, A1A5D7, C9JQZ5, Q58A26, Q58A27, Q6ZU67
      UniProtKB/TrEMBL
      A0A0C4DGA9
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