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    Ubp1 upstream binding protein 1 [ Mus musculus (house mouse) ]

    Gene ID: 22221, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Ubp1provided by MGI
    Official Full Name
    upstream binding protein 1provided by MGI
    Primary source
    MGI:MGI:104889
    See related
    Ensembl:ENSMUSG00000009741 AllianceGenome:MGI:104889
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Cp2b; NF2d9; LBP-1a; LBP-1b
    Summary
    Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within angiogenesis. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including early conceptus; genitourinary system; gut gland; intestine smooth muscle circular layer; and limb. Orthologous to human UBP1 (upstream binding protein 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E14 (RPKM 37.3), limb E14.5 (RPKM 35.1) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Ubp1 in Genome Data Viewer
    Location:
    9 F3; 9 64.14 cM
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (113760002..113807095)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (113930939..113978027)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene CLIP associating protein 2 Neighboring gene predicted gene, 25059 Neighboring gene STARR-positive B cell enhancer ABC_E2309 Neighboring gene predicted gene, 39439 Neighboring gene F-box and leucine-rich repeat protein 2 Neighboring gene predicted gene, 36035 Neighboring gene STARR-seq mESC enhancer starr_25334 Neighboring gene predicted gene, 36883

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Binding of LBP-1a to specific immunoglobulin switch regions in vivo correlates with specific repression of class switch recombination. Repetny KJ, et al. Eur J Immunol, 2009 May. PMID 19384868, Free PMC Article
    2. A nuclear factor (NF2d9) that binds to the male-specific P450 (Cyp 2d-9) gene in mouse liver. Sueyoshi T, et al. Mol Cell Biol, 1995 Aug. PMID 7623810, Free PMC Article
    3. Erythroid cell-specific alpha-globin gene regulation by the CP2 transcription factor family. Kang HC, et al. Mol Cell Biol, 2005 Jul. PMID 15988015, Free PMC Article
    4. Identification of the UBP1 locus as a critical blood pressure determinant using a combination of mouse and human genetics. Koutnikova H, et al. PLoS Genet, 2009 Aug. PMID 19662162, Free PMC Article
    5. Transactivation activity of LBP-1 proteins and their dimerization in living cells. Katsura A, et al. Genes Cells, 2009 Oct. PMID 19751393

    See all (44) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. UBP1 is a critical blood pressure determinant using a combination of mouse and human genetics.
      Title: Identification of the UBP1 locus as a critical blood pressure determinant using a combination of mouse and human genetics.
    2. These results demonstrate that LBP-1a plays a critical role in the regulation of extraembryonic angiogenesis.
      Title: Defective extraembryonic angiogenesis in mice lacking LBP-1a, a member of the grainyhead family of transcription factors.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (3)  1 citation

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sequence-specific double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within angiogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of viral transcription 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
    		  
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    upstream-binding protein 1
    Names
    nuclear factor 2d9

    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_001083319.2 → NP_001076788.1  upstream-binding protein 1 isoform a

      See identical proteins and their annotated locations for NP_001076788.1

      Status: VALIDATED

      Source sequence(s)
      AC107803, CT025531
      Consensus CDS
      CCDS40788.1
      UniProtKB/Swiss-Prot
      A4QPG4, Q3UPR3, Q3US11, Q60786, Q811S7, Q8C514
      UniProtKB/TrEMBL
      B2RUD2
      Related
      ENSMUSP00000081946.6, ENSMUST00000084885.12
      Conserved Domains (2) summary
      cd09588
      Location:369 → 435
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:50 → 254
      CP2; CP2 transcription factor

    2. NM_001372507.1 → NP_001359436.1  upstream-binding protein 1 isoform a

      Status: VALIDATED

      Source sequence(s)
      AC107803, CT025531
      UniProtKB/Swiss-Prot
      A4QPG4, Q3UPR3, Q3US11, Q60786, Q811S7, Q8C514
      UniProtKB/TrEMBL
      B2RUD2
      Conserved Domains (2) summary
      cd09588
      Location:369 → 435
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:50 → 254
      CP2; CP2 transcription factor

    3. NM_001372508.1 → NP_001359437.1  upstream-binding protein 1 isoform a

      Status: VALIDATED

      Source sequence(s)
      AC107803, CT025531
      UniProtKB/Swiss-Prot
      A4QPG4, Q3UPR3, Q3US11, Q60786, Q811S7, Q8C514
      UniProtKB/TrEMBL
      B2RUD2
      Conserved Domains (2) summary
      cd09588
      Location:369 → 435
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:50 → 254
      CP2; CP2 transcription factor

    4. NM_001372510.1 → NP_001359439.1  upstream-binding protein 1 isoform a

      Status: VALIDATED

      Source sequence(s)
      AC107803, CT025531
      UniProtKB/Swiss-Prot
      A4QPG4, Q3UPR3, Q3US11, Q60786, Q811S7, Q8C514
      UniProtKB/TrEMBL
      B2RUD2
      Related
      ENSMUSP00000150023.2, ENSMUST00000216558.2
      Conserved Domains (2) summary
      cd09588
      Location:369 → 435
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:50 → 254
      CP2; CP2 transcription factor

    5. NM_001372511.1 → NP_001359440.1  upstream-binding protein 1 isoform b

      Status: VALIDATED

      Source sequence(s)
      AC107803, CT025531
      UniProtKB/TrEMBL
      B2RUD2
      Related
      ENSMUSP00000149908.2, ENSMUST00000214095.2
      Conserved Domains (2) summary
      cd09588
      Location:333 → 399
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:50 → 254
      CP2; CP2 transcription factor

    6. NM_001372512.1 → NP_001359441.1  upstream-binding protein 1 isoform b

      Status: VALIDATED

      Source sequence(s)
      AC107803, CT025531
      UniProtKB/TrEMBL
      B2RUD2
      Conserved Domains (2) summary
      cd09588
      Location:333 → 399
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:50 → 254
      CP2; CP2 transcription factor

    7. NM_001372514.1 → NP_001359443.1  upstream-binding protein 1 isoform b

      Status: VALIDATED

      Source sequence(s)
      AC107803, CT025531
      UniProtKB/TrEMBL
      B2RUD2
      Conserved Domains (2) summary
      cd09588
      Location:333 → 399
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:50 → 254
      CP2; CP2 transcription factor

    8. NM_013699.3 → NP_038727.1  upstream-binding protein 1 isoform b

      See identical proteins and their annotated locations for NP_038727.1

      Status: VALIDATED

      Source sequence(s)
      AC107803, CT025531
      Consensus CDS
      CCDS40789.1
      UniProtKB/TrEMBL
      B2RUD2
      Related
      ENSMUSP00000009885.8, ENSMUST00000009885.14
      Conserved Domains (2) summary
      cd09588
      Location:333 → 399
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:50 → 254
      CP2; CP2 transcription factor

    RNA

    1. NR_164181.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC107803, CT025531

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      113760002..113807095
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036154842.1 → XP_036010735.1  upstream-binding protein 1 isoform X4

      UniProtKB/TrEMBL
      B2RUD2
      Conserved Domains (2) summary
      cd09588
      Location:333 → 399
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:50 → 254
      CP2; CP2 transcription factor

    2. XM_006512055.3 → XP_006512118.1  upstream-binding protein 1 isoform X3

      See identical proteins and their annotated locations for XP_006512118.1

      UniProtKB/TrEMBL
      B2RUD2
      Conserved Domains (2) summary
      cd09588
      Location:369 → 435
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:50 → 254
      CP2; CP2 transcription factor

    3. XM_006512050.5 → XP_006512113.3  upstream-binding protein 1 isoform X1

      Conserved Domains (2) summary
      cd09588
      Location:458 → 524
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:139 → 343
      CP2; CP2 transcription factor

    4. XM_006512052.5 → XP_006512115.3  upstream-binding protein 1 isoform X2

      UniProtKB/TrEMBL
      B2RUD2
      Conserved Domains (2) summary
      cd09588
      Location:422 → 488
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:139 → 343
      CP2; CP2 transcription factor

    5. XM_030244246.1 → XP_030100106.1  upstream-binding protein 1 isoform X7

      Related
      ENSMUST00000216891.2
      Conserved Domains (2) summary
      cd09588
      Location:181 → 247
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:2 → 102
      CP2; CP2 transcription factor

    6. XM_006512058.4 → XP_006512121.1  upstream-binding protein 1 isoform X5

      Conserved Domains (3) summary
      cd09588
      Location:217 → 283
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:2 → 102
      CP2; CP2 transcription factor
      pfam17061
      Location:135 → 197
      PARM

    7. XM_030244245.1 → XP_030100105.1  upstream-binding protein 1 isoform X6

      Conserved Domains (3) summary
      cd09588
      Location:217 → 283
      SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
      pfam04516
      Location:2 → 102
      CP2; CP2 transcription factor
      pfam17061
      Location:135 → 197
      PARM

    RNA

    1. XR_001778854.3 RNA Sequence

    2. XR_001778853.3 RNA Sequence

    3. XR_001778856.3 RNA Sequence

    4. XR_379864.5 RNA Sequence

    5. XR_001778855.3 RNA Sequence

    6. XR_001778857.3 RNA Sequence

    7. XR_001778852.3 RNA Sequence

    8. XR_001778858.3 RNA Sequence

    9. XR_004935386.1 RNA Sequence

    10. XR_004935387.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q811S7.1 GenPept UniProtKB/Swiss-Prot:Q811S7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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