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XAB2 XPA binding protein 2 [ Homo sapiens (human) ]

Gene ID: 56949, updated on 1-Jun-2020

Summary

Official Symbol
XAB2provided by HGNC
Official Full Name
XPA binding protein 2provided by HGNC
Primary source
HGNC:HGNC:14089
See related
Ensembl:ENSG00000076924 MIM:610850
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
HCNP; HCRN; SYF1; NTC90
Expression
Ubiquitous expression in testis (RPKM 21.5), ovary (RPKM 19.8) and 25 other tissues See more
Orthologs

Genomic context

See XAB2 in Genome Data Viewer
Location:
19p13.2
Exon count:
19
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (7619525..7629545, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (7684411..7694439, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene patatin like phospholipase domain containing 6 Neighboring gene calmodulin regulated spectrin associated protein family member 3 Neighboring gene microRNA 6792 Neighboring gene PET100 cytochrome c oxidase chaperone Neighboring gene Purkinje cell protein 2 Neighboring gene syntaxin binding protein 2

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

Replication interactions

Interaction Pubs
Knockdown of XPA binding protein 2 (XAB2) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp762C1015

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
blastocyst development IEA
Inferred from Electronic Annotation
more info
 
cerebral cortex development IEA
Inferred from Electronic Annotation
more info
 
generation of catalytic spliceosome for first transesterification step IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA splicing, via spliceosome IC
Inferred by Curator
more info
PubMed 
mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
transcription-coupled nucleotide-excision repair IDA
Inferred from Direct Assay
more info
PubMed 
transcription-coupled nucleotide-excision repair TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
Prp19 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
U2-type catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
U2-type catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
membrane HDA PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IC
Inferred by Curator
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
post-mRNA release spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
pre-mRNA-splicing factor SYF1
Names
SYF1 homolog, RNA splicing factor
SYF1 pre-mRNA-splicing factor
crn-related protein kim1

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_020196.3NP_064581.2  pre-mRNA-splicing factor SYF1

    See identical proteins and their annotated locations for NP_064581.2

    Status: VALIDATED

    Source sequence(s)
    AF226051, BC007208
    Consensus CDS
    CCDS32892.1
    UniProtKB/Swiss-Prot
    Q9HCS7
    Related
    ENSP00000351137.3, ENST00000358368.5
    Conserved Domains (4) summary
    TIGR02521
    Location:486618
    type_IV_pilW; type IV pilus biogenesis/stability protein PilW
    COG0457
    Location:272549
    TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
    sd00006
    Location:389424
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:396462
    TPR_12; Tetratricopeptide repeat

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    7619525..7629545 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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