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UBP1 upstream binding protein 1 [ Homo sapiens (human) ]

Gene ID: 7342, updated on 21-Dec-2019

Summary

Official Symbol
UBP1provided by HGNC
Official Full Name
upstream binding protein 1provided by HGNC
Primary source
HGNC:HGNC:12507
See related
Ensembl:ENSG00000153560 MIM:609784
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
LBP1A; LBP1B; LBP-1B; LBP-1a
Expression
Ubiquitous expression in lymph node (RPKM 21.9), appendix (RPKM 18.6) and 25 other tissues See more
Orthologs

Genomic context

See UBP1 in Genome Data Viewer
Location:
3p22.3
Exon count:
19
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (33388336..33440405, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (33429828..33481897, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene cartilage associated protein Neighboring gene sushi domain containing 5 Neighboring gene F-box and leucine rich repeat protein 2 Neighboring gene RNA, U7 small nuclear 110 pseudogene Neighboring gene RNA, 5S ribosomal pseudogene 128 Neighboring gene cytoplasmic linker associated protein 2 Neighboring gene cytochrome c oxidase subunit 6C pseudogene 10

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
Tat tat Combination of LBP-1 and Oct1 cellular transcription activators represses transcription initiation at the HIV-1 LTR promoter by HIV-1 Tat PubMed
tat A novel function of LBP-1, restricting HIV-1 transcription at the level of elongation, is suppressed by HIV-1 Tat PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp686L1745

Gene Ontology Provided by GOA

Process Evidence Code Pubs
angiogenesis IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription, DNA-templated TAS
Traceable Author Statement
more info
PubMed 
regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
viral genome replication TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
nuclear chromatin ISA
Inferred from Sequence Alignment
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
upstream-binding protein 1
Names
transcription factor LBP-1

NCBI Reference Sequences (RefSeq)

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_001128160.1NP_001121632.1  upstream-binding protein 1 isoform LBP-1a

    See identical proteins and their annotated locations for NP_001121632.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the mid-coding region compared to variant 1. The resulting isoform (LBP-1a) is shorter than isoform a.
    Source sequence(s)
    AK023274, AL831847, BC047235
    Consensus CDS
    CCDS46788.1
    UniProtKB/Swiss-Prot
    Q9NZI7
    UniProtKB/TrEMBL
    A0A024R2J0
    Related
    ENSP00000395558.2, ENST00000447368.6
    Conserved Domains (2) summary
    cd09588
    Location:333399
    SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
    pfam04516
    Location:54254
    CP2; CP2 transcription factor
  2. NM_001128161.1NP_001121633.1  upstream-binding protein 1 isoform LBP-1b

    See identical proteins and their annotated locations for NP_001121633.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 and 3 encode the same isoform (LBP-1b).
    Source sequence(s)
    AK293100, AL831847, BC047235, DB131031
    Consensus CDS
    CCDS2659.1
    UniProtKB/Swiss-Prot
    Q9NZI7
    UniProtKB/TrEMBL
    A0A024R2L0, A8KAN5
    Related
    ENSP00000283628.5, ENST00000283628.9
    Conserved Domains (2) summary
    cd09588
    Location:369435
    SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
    pfam04516
    Location:54254
    CP2; CP2 transcription factor
  3. NM_014517.5NP_055332.3  upstream-binding protein 1 isoform LBP-1b

    See identical proteins and their annotated locations for NP_055332.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (LBP-1b). Variants 1 and 3 encode the same isoform.
    Source sequence(s)
    AC093114, AF198487, AK023274, AL831847, BC047235
    Consensus CDS
    CCDS2659.1
    UniProtKB/Swiss-Prot
    Q9NZI7
    UniProtKB/TrEMBL
    A0A024R2L0
    Related
    ENSP00000283629.3, ENST00000283629.8
    Conserved Domains (2) summary
    cd09588
    Location:369435
    SAM_LBP1; SAM domain of LBP1 (UBP1) transcription factors
    pfam04516
    Location:54254
    CP2; CP2 transcription factor

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    33388336..33440405 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_001740250.1 RNA Sequence

  2. XR_001740251.2 RNA Sequence

  3. XR_001740252.2 RNA Sequence

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