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Xab2 XPA binding protein 2 [ Mus musculus (house mouse) ]

Gene ID: 67439, updated on 28-Oct-2024

Summary

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Official Symbol
Xab2provided by MGI
Official Full Name
XPA binding protein 2provided by MGI
Primary source
MGI:MGI:1914689
See related
Ensembl:ENSMUSG00000019470 AllianceGenome:MGI:1914689
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
0610041O14Rik
Summary
Acts upstream of or within blastocyst development. Predicted to be located in nucleoplasm. Predicted to be part of Prp19 complex; U2-type catalytic step 2 spliceosome; and post-mRNA release spliceosomal complex. Is expressed in central nervous system; embryo mesenchyme; and retina layer. Orthologous to human XAB2 (XPA binding protein 2). [provided by Alliance of Genome Resources, Oct 2024]
Expression
Ubiquitous expression in ovary adult (RPKM 41.3), thymus adult (RPKM 39.0) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Xab2 in Genome Data Viewer
Location:
8 A1.1; 8 1.92 cM
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (3660089..3671311, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (3610087..3621334, complement)

Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene ribosomal protein S23, retrogene 1 Neighboring gene ribosomal protein S23, pseudogene 2 Neighboring gene calmodulin regulated spectrin-associated protein family, member 3 Neighboring gene STARR-seq mESC enhancer starr_20594 Neighboring gene STARR-positive B cell enhancer ABC_E3766 Neighboring gene PET100 homolog Neighboring gene Purkinje cell protein 2 (L7) Neighboring gene syntaxin binding protein 2

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 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. The splicing factor XAB2 interacts with ERCC1-XPF and XPG for R-loop processing. Goulielmaki E, et al. Nat Commun, 2021 May 26. PMID 34039990, Free PMC Article
  2. Disruption of mouse XAB2 gene involved in pre-mRNA splicing, transcription and transcription-coupled DNA repair results in preimplantation lethality. Yonemasu R, et al. DNA Repair (Amst), 2005 Apr 4. PMID 15725628
  3. Transgenic mice expressing Cre-recombinase specifically in retinal rod bipolar neurons. Zhang XM, et al. Invest Ophthalmol Vis Sci, 2005 Oct. PMID 16186328
  4. Laser capture microdissection and cDNA array analysis for identification of mouse KIAA/FLJ genes differentially expressed in the embryonic dorsal spinal cord. Masuda T, et al. Brain Res, 2009 Jan 16. PMID 19026994
  5. Transcription factor Foxp3 and its protein partners form a complex regulatory network. Rudra D, et al. Nat Immunol, 2012 Oct. PMID 22922362, Free PMC Article

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The splicing factor XAB2 interacts with ERCC1-XPF and XPG for R-loop processing.
    Title: The splicing factor XAB2 interacts with ERCC1-XPF and XPG for R-loop processing.
  2. XAB2 has an essential function in mouse embryogenesis.
    Title: Disruption of mouse XAB2 gene involved in pre-mRNA splicing, transcription and transcription-coupled DNA repair results in preimplantation lethality.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

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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 molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
involved_in DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within blastocyst development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in generation of catalytic spliceosome for first transesterification step IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in mRNA splicing, via spliceosome ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in transcription-coupled nucleotide-excision repair ISO
Inferred from Sequence Orthology
more info
  
involved_in transcription-coupled nucleotide-excision repair ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
part_of Prp19 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U2-type catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U2-type catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
  
part_of U2-type catalytic step 2 spliceosome ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
  
located_in intracellular membrane-bounded organelle 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
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of post-mRNA release spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
pre-mRNA-splicing factor SYF1

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_026156.2 → NP_080432.1  pre-mRNA-splicing factor SYF1

    See identical proteins and their annotated locations for NP_080432.1

    Status: VALIDATED

    Source sequence(s)
    AK002890
    Consensus CDS
    CCDS22065.1
    UniProtKB/Swiss-Prot
    Q8VDT5, Q9CVD8, Q9DCD2
    UniProtKB/TrEMBL
    Q3UKP5
    Related
    ENSMUSP00000019614.7, ENSMUST00000019614.13
    Conserved Domains (3) summary
    TIGR02521
    Location:486 → 618
    type_IV_pilW; type IV pilus biogenesis/stability protein PilW
    COG0457
    Location:272 → 549
    TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
    sd00006
    Location:389 → 424
    TPR; TPR repeat [structural motif]

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_000074.7 Reference GRCm39 C57BL/6J

    Range
    3660089..3671311 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030243737.2 → XP_030099597.1  pre-mRNA-splicing factor SYF1 isoform X2

    UniProtKB/TrEMBL
    Q3UKP5
    Conserved Domains (2) summary
    COG0457
    Location:167 → 444
    TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
    sd00006
    Location:284 → 319
    TPR; TPR repeat [structural motif]

  2. XM_036154251.1 → XP_036010144.1  pre-mRNA-splicing factor SYF1 isoform X3

    Related
    ENSMUST00000159909.8
    Conserved Domains (1) summary
    sd00006
    Location:32 → 60
    TPR; TPR repeat [structural motif]

  3. XM_006508864.2 → XP_006508927.1  pre-mRNA-splicing factor SYF1 isoform X1

    UniProtKB/TrEMBL
    Q3UKP5
    Conserved Domains (4) summary
    TIGR02521
    Location:446 → 578
    type_IV_pilW; type IV pilus biogenesis/stability protein PilW
    COG0457
    Location:232 → 509
    TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
    sd00006
    Location:349 → 384
    TPR; TPR repeat [structural motif]
    pfam07719
    Location:217 → 244
    TPR_2; Tetratricopeptide repeat
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9DCD2.1 GenPept UniProtKB/Swiss-Prot:Q9DCD2

Gene LinkOut

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