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    FUBP1 far upstream element binding protein 1 [ Homo sapiens (human) ]

    Gene ID: 8880, updated on 9-Jun-2024

    Summary

    Official Symbol
    FUBP1provided by HGNC
    Official Full Name
    far upstream element binding protein 1provided by HGNC
    Primary source
    HGNC:HGNC:4004
    See related
    Ensembl:ENSG00000162613 MIM:603444; AllianceGenome:HGNC:4004
    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
    FBP; FUBP; hDH V
    Summary
    The protein encoded by this gene is a single stranded DNA-binding protein that binds to multiple DNA elements, including the far upstream element (FUSE) located upstream of c-myc. Binding to FUSE occurs on the non-coding strand, and is important to the regulation of c-myc in undifferentiated cells. This protein contains three domains, an amphipathic helix N-terminal domain, a DNA-binding central domain, and a C-terminal transactivation domain that contains three tyrosine-rich motifs. The N-terminal domain is thought to repress the activity of the C-terminal domain. This protein is also thought to bind RNA, and contains 3'-5' helicase activity with in vitro activity on both DNA-DNA and RNA-RNA duplexes. Aberrant expression of this gene has been found in malignant tissues, and this gene is important to neural system and lung development. Binding of this protein to viral RNA is thought to play a role in several viral diseases, including hepatitis C and hand, foot and mouth disease. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]
    Expression
    Ubiquitous expression in lymph node (RPKM 23.3), bone marrow (RPKM 20.3) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See FUBP1 in Genome Data Viewer
    Location:
    1p31.1
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (77944055..77979501, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (77782851..77818345, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (78409740..78444756, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene mitoguardin 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:78336231-78337101 Neighboring gene heat shock protein family E (Hsp10) member 1 pseudogene 25 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1222 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1005 Neighboring gene NEXN antisense RNA 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:78374978-78375131 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:78383688-78384887 Neighboring gene nexilin F-actin binding protein Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1006 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:78431300-78431502 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1223 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1226 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1225 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1224 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1227 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1228 Neighboring gene DnaJ heat shock protein family (Hsp40) member B4 Neighboring gene nitrilase family member 2 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1229 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1230 Neighboring gene GIPC PDZ domain containing family member 2 Neighboring gene RNA, U6 small nuclear 1102, pseudogene

    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?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env HIV-1 gp120 downregulates the expression of far upstream element-binding protein in T-cell lines and umbilical cord blood mononuclear cells PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables single-stranded DNA binding TAS
    Traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    far upstream element-binding protein 1
    Names
    DNA helicase V
    FUSE binding protein 1
    epididymis secretory sperm binding protein
    far upstream element (FUSE) binding protein 1

    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.

    Genomic

    1. NG_033243.2 RefSeqGene

      Range
      4889..35692
      Download
      GenBank, FASTA, Sequence Viewer (Graphics), LRG_995

    mRNA and Protein(s)

    1. NM_001303433.2NP_001290362.1  far upstream element-binding protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001290362.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC096948, AK300032, CB133133, DA113820, U05040
      UniProtKB/TrEMBL
      A0A1Z1G4M2, B4DT31, E9PCF5
      Conserved Domains (5) summary
      pfam09005
      Location:623643
      DUF1897; Domain of unknown function (DUF1897)
      cd22478
      Location:119193
      KH-I_FUBP1_rpt1; first type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22481
      Location:207276
      KH-I_FUBP1_rpt2; second type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22484
      Location:297364
      KH-I_FUBP1_rpt3; third type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22487
      Location:397468
      KH-I_FUBP1_rpt4; fourth type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
    2. NM_001376055.1NP_001362984.1  far upstream element-binding protein 1 isoform 3

      Status: REVIEWED

      Source sequence(s)
      AC096948, KF510733
      UniProtKB/TrEMBL
      A0A1Z1G4M2
      Conserved Domains (5) summary
      pfam09005
      Location:622642
      DUF1897; Domain of unknown function (DUF1897)
      cd22478
      Location:118192
      KH-I_FUBP1_rpt1; first type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22481
      Location:206275
      KH-I_FUBP1_rpt2; second type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22484
      Location:296363
      KH-I_FUBP1_rpt3; third type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22487
      Location:396467
      KH-I_FUBP1_rpt4; fourth type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
    3. NM_001376056.1NP_001362985.1  far upstream element-binding protein 1 isoform 4

      Status: REVIEWED

      Source sequence(s)
      AC096948, KF510733
      Consensus CDS
      CCDS90982.1
      UniProtKB/TrEMBL
      A0A1Z1G4M2, A0A994J3Q8
      Related
      ENSP00000515388.1, ENST00000703586.1
      Conserved Domains (5) summary
      pfam09005
      Location:601621
      DUF1897; Domain of unknown function (DUF1897)
      cd22478
      Location:97171
      KH-I_FUBP1_rpt1; first type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22481
      Location:185254
      KH-I_FUBP1_rpt2; second type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22484
      Location:275342
      KH-I_FUBP1_rpt3; third type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22487
      Location:375446
      KH-I_FUBP1_rpt4; fourth type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
    4. NM_001376057.1NP_001362986.1  far upstream element-binding protein 1 isoform 5

      Status: REVIEWED

      Source sequence(s)
      AC096948, KF510733
      UniProtKB/TrEMBL
      A0A1Z1G4M2
      Conserved Domains (5) summary
      pfam09005
      Location:601621
      DUF1897; Domain of unknown function (DUF1897)
      cd22478
      Location:97171
      KH-I_FUBP1_rpt1; first type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22481
      Location:185254
      KH-I_FUBP1_rpt2; second type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22484
      Location:275342
      KH-I_FUBP1_rpt3; third type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22487
      Location:375446
      KH-I_FUBP1_rpt4; fourth type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
    5. NM_001410804.1NP_001397733.1  far upstream element-binding protein 1 isoform 6

      Status: REVIEWED

      Source sequence(s)
      AC096948, KF510733
      Consensus CDS
      CCDS90984.1
      UniProtKB/TrEMBL
      A0A1Z1G4M2, C9JSZ1
      Related
      ENSP00000402630.2, ENST00000421641.2
    6. NM_003902.5NP_003893.2  far upstream element-binding protein 1 isoform 2

      See identical proteins and their annotated locations for NP_003893.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC096948, CB133133, DA113820, U05040
      Consensus CDS
      CCDS683.1
      UniProtKB/Swiss-Prot
      Q12828, Q96AE4
      UniProtKB/TrEMBL
      A0A1Z1G4M2
      Related
      ENSP00000359804.2, ENST00000370768.7
      Conserved Domains (2) summary
      pfam09005
      Location:602622
      DUF1897; Domain of unknown function (DUF1897)
      cl00098
      Location:98172
      KH-I; K homology (KH) RNA-binding domain, type I

    RNA

    1. NR_130152.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate internal exon, uses an alternate splice site in an internal exon, and differs in the 3' terminal region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      BC017247, DA113820
    2. NR_146539.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks an alternate internal exon, uses an alternate splice site in an internal exon, and differs in the 3' terminal region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AW295160, BC017247, BQ934904, DA113820
    3. NR_146540.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) lacks an alternate internal exon, and differs in the 3' terminal region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL532525, AW295160, BC017247, BQ934904
    4. NR_164755.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC096948, KF510733
    5. NR_164756.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC096948, KF510733

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      77944055..77979501 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047433487.1XP_047289443.1  far upstream element-binding protein 1 isoform X4

      UniProtKB/TrEMBL
      A0A1Z1G4M2, A0A994J3Q8
    2. XM_047433493.1XP_047289449.1  far upstream element-binding protein 1 isoform X10

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    3. XM_047433485.1XP_047289441.1  far upstream element-binding protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    4. XM_047433492.1XP_047289448.1  far upstream element-binding protein 1 isoform X9

      UniProtKB/Swiss-Prot
      Q12828, Q96AE4
      UniProtKB/TrEMBL
      A0A1Z1G4M2
    5. XM_047433489.1XP_047289445.1  far upstream element-binding protein 1 isoform X6

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    6. XM_017002739.2XP_016858228.1  far upstream element-binding protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A1Z1G4M2
      Conserved Domains (5) summary
      pfam09005
      Location:623643
      DUF1897; Domain of unknown function (DUF1897)
      cd22478
      Location:119193
      KH-I_FUBP1_rpt1; first type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22481
      Location:207276
      KH-I_FUBP1_rpt2; second type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22484
      Location:297364
      KH-I_FUBP1_rpt3; third type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22487
      Location:397468
      KH-I_FUBP1_rpt4; fourth type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
    7. XM_047433488.1XP_047289444.1  far upstream element-binding protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A1Z1G4M2, B4DT31, E9PCF5
    8. XM_017002743.3XP_016858232.1  far upstream element-binding protein 1 isoform X8

      UniProtKB/TrEMBL
      A0A1Z1G4M2, A0A384MDX9
      Related
      ENSP00000294623.4, ENST00000294623.8
      Conserved Domains (5) summary
      pfam09005
      Location:601621
      DUF1897; Domain of unknown function (DUF1897)
      cd22478
      Location:97171
      KH-I_FUBP1_rpt1; first type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22481
      Location:185254
      KH-I_FUBP1_rpt2; second type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22484
      Location:275342
      KH-I_FUBP1_rpt3; third type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22487
      Location:375446
      KH-I_FUBP1_rpt4; fourth type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
    9. XM_047433491.1XP_047289447.1  far upstream element-binding protein 1 isoform X7

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    10. XM_017002740.3XP_016858229.1  far upstream element-binding protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A1Z1G4M2
      Conserved Domains (5) summary
      pfam09005
      Location:623643
      DUF1897; Domain of unknown function (DUF1897)
      cd22478
      Location:119193
      KH-I_FUBP1_rpt1; first type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22481
      Location:207276
      KH-I_FUBP1_rpt2; second type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22484
      Location:297364
      KH-I_FUBP1_rpt3; third type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins
      cd22487
      Location:397468
      KH-I_FUBP1_rpt4; fourth type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 1 (FUBP1) and similar proteins

    RNA

    1. XR_007064840.1 RNA Sequence

    2. XR_007064839.1 RNA Sequence

    3. XR_007064844.1 RNA Sequence

    4. XR_007064843.1 RNA Sequence

    5. XR_007064838.1 RNA Sequence

    6. XR_007064842.1 RNA Sequence

    7. XR_946790.4 RNA Sequence

    8. XR_001737517.3 RNA Sequence

    9. XR_001737514.3 RNA Sequence

    10. XR_007064841.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      77782851..77818345 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054339463.1XP_054195438.1  far upstream element-binding protein 1 isoform X10

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    2. XM_054339457.1XP_054195432.1  far upstream element-binding protein 1 isoform X4

      UniProtKB/TrEMBL
      A0A1Z1G4M2, A0A994J3Q8
    3. XM_054339456.1XP_054195431.1  far upstream element-binding protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    4. XM_054339462.1XP_054195437.1  far upstream element-binding protein 1 isoform X9

      UniProtKB/Swiss-Prot
      Q12828, Q96AE4
      UniProtKB/TrEMBL
      A0A1Z1G4M2
    5. XM_054339459.1XP_054195434.1  far upstream element-binding protein 1 isoform X6

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    6. XM_054339458.1XP_054195433.1  far upstream element-binding protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A1Z1G4M2, B4DT31, E9PCF5
    7. XM_054339453.1XP_054195428.1  far upstream element-binding protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    8. XM_054339461.1XP_054195436.1  far upstream element-binding protein 1 isoform X8

      UniProtKB/TrEMBL
      A0A1Z1G4M2, A0A384MDX9
    9. XM_054339455.1XP_054195430.1  far upstream element-binding protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    10. XM_054339452.1XP_054195427.1  far upstream element-binding protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    11. XM_054339460.1XP_054195435.1  far upstream element-binding protein 1 isoform X7

      UniProtKB/TrEMBL
      A0A1Z1G4M2
    12. XM_054339454.1XP_054195429.1  far upstream element-binding protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A1Z1G4M2

    RNA

    1. XR_008486196.1 RNA Sequence

    2. XR_008486194.1 RNA Sequence

    3. XR_008486195.1 RNA Sequence

    4. XR_008486200.1 RNA Sequence

    5. XR_008486193.1 RNA Sequence

    6. XR_008486199.1 RNA Sequence

    7. XR_008486190.1 RNA Sequence

    8. XR_008486198.1 RNA Sequence

    9. XR_008486189.1 RNA Sequence

    10. XR_008486192.1 RNA Sequence

    11. XR_008486191.1 RNA Sequence

    12. XR_008486197.1 RNA Sequence