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

Summary

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, Nov 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

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_000074.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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)

Targeted (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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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)

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

NC_000074.7 Reference GRCm39 C57BL/6J

Range

3660089..3671311 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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]
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]
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