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FUBP3 far upstream element binding protein 3 [ Homo sapiens (human) ]

Gene ID: 8939, updated on 6-Nov-2022

Summary

Official Symbol
FUBP3provided by HGNC
Official Full Name
far upstream element binding protein 3provided by HGNC
Primary source
HGNC:HGNC:4005
See related
Ensembl:ENSG00000107164 MIM:603536; AllianceGenome:HGNC:4005
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
FBP3
Summary
Enables single-stranded DNA binding activity. Involved in positive regulation of gene expression; positive regulation of transcription, DNA-templated; and transcription, DNA-templated. Acts upstream of or within positive regulation of transcription by RNA polymerase II. Located in cytoplasm and nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thyroid (RPKM 15.5), brain (RPKM 11.3) and 25 other tissues See more
Orthologs
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Genomic context

See FUBP3 in Genome Data Viewer
Location:
9q34.11-q34.12
Exon count:
21
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (130579577..130638352)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (142784549..142843289)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (133454964..133513739)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 5386 Neighboring gene uncharacterized LOC100272217 Neighboring gene uncharacterized LOC124902286 Neighboring gene Sharpr-MPRA regulatory region 1186 Neighboring gene microRNA 6856 Neighboring gene ribosomal protein L19 pseudogene 15 Neighboring gene VISTA enhancer hs876 Neighboring gene PR/SET domain 12

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

Phenotypes

EBI GWAS Catalog

Description
Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
EBI GWAS Catalog
Genome-wide meta-analysis identifies 56 bone mineral density loci and reveals 14 loci associated with risk of fracture.
EBI GWAS Catalog
Hundreds of variants clustered in genomic loci and biological pathways affect human height.
EBI GWAS Catalog
Identification of ten loci associated with height highlights new biological pathways in human growth.
EBI GWAS Catalog
Phenotypic dissection of bone mineral density reveals skeletal site specificity and facilitates the identification of novel loci in the genetic regulation of bone mass attainment.
EBI GWAS Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ25229

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
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables single-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in dendritic shaft IEA
Inferred from Electronic Annotation
more info
 
located_in membrane HDA PubMed 
located_in neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus NAS
Non-traceable Author Statement
more info
PubMed 
part_of polysome IEA
Inferred from Electronic Annotation
more info
 
located_in ribosome IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
far upstream element-binding protein 3
Names
FUSE-binding protein 3
far upstream element (FUSE) binding protein 3

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_003934.2NP_003925.1  far upstream element-binding protein 3

    See identical proteins and their annotated locations for NP_003925.1

    Status: VALIDATED

    Source sequence(s)
    AL537190, BC001325, BI461266, U69127
    Consensus CDS
    CCDS43893.1
    UniProtKB/Swiss-Prot
    Q96I24, Q9BVB6
    UniProtKB/TrEMBL
    A0A024R8A7
    Related
    ENSP00000318177.9, ENST00000319725.10
    Conserved Domains (1) summary
    cl00098
    Location:159241
    KH-I; K homology (KH) RNA-binding domain, type I

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    130579577..130638352
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005272232.3XP_005272289.1  far upstream element-binding protein 3 isoform X1

    See identical proteins and their annotated locations for XP_005272289.1

    Conserved Domains (1) summary
    cl00098
    Location:159241
    KH-I; K homology (KH) RNA-binding domain, type I
  2. XM_011519172.4XP_011517474.1  far upstream element-binding protein 3 isoform X2

    Conserved Domains (2) summary
    smart00322
    Location:161232
    KH; K homology RNA-binding domain
    cd00105
    Location:79141
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...

RNA

  1. XR_007061369.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    142784549..142843289
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)