Slx1b SLX1 homolog B, structure-specific endonuclease subunit [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slx1bprovided by RGD
Official Full Name: SLX1 homolog B, structure-specific endonuclease subunitprovided by RGD
Primary source: RGD:1311568
See related: Ensembl:ENSRNOG00000019369 AllianceGenome:RGD:1311568
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Giyd1; Giyd2; LRRGT00058; RGD1311568
Summary: Predicted to enable 5'-flap endonuclease activity and crossover junction endodeoxyribonuclease activity. Predicted to be involved in DNA metabolic process and regulation of telomere maintenance. Predicted to be located in nucleoplasm. Predicted to be part of Slx1-Slx4 complex. Orthologous to human SLX1A (SLX1 homolog A, structure-specific endonuclease subunit). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 65.3), Kidney (RPKM 59.3) and 9 other tissues See more
Orthologs: human all
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Genomic context

Location:: 1q36

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (190716759..190722307, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (181286190..181291739, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (198114514..198120061, complement)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

RH141499 (e-PCR)
- UniSTS:223493

RH135222 (e-PCR)
- UniSTS:218499

RH132433 (e-PCR)
- UniSTS:215716

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 5'-flap endonuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables 5'-flap endonuclease activity	IEA Inferred from Electronic Annotation more info
enables 5'-flap endonuclease activity	ISO Inferred from Sequence Orthology more info
enables crossover junction DNA endonuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables crossover junction DNA endonuclease activity	IEA Inferred from Electronic Annotation more info
enables crossover junction DNA endonuclease activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in DNA double-strand break processing involved in repair via single-strand annealing	ISO Inferred from Sequence Orthology more info
involved_in DNA recombination	IEA Inferred from Electronic Annotation more info
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in DNA repair	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair via homologous recombination	IBA Inferred from Biological aspect of Ancestor more info
involved_in double-strand break repair via homologous recombination	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of telomere maintenance via telomere lengthening	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of t-circle formation	ISO Inferred from Sequence Orthology more info
involved_in t-circle formation	ISO Inferred from Sequence Orthology more info
involved_in telomere maintenance via telomere lengthening	ISO Inferred from Sequence Orthology more info
involved_in telomeric D-loop disassembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of Slx1-Slx4 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Slx1-Slx4 complex	IEA Inferred from Electronic Annotation more info
part_of Slx1-Slx4 complex	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: structure-specific endonuclease subunit SLX1

Names: GIY-YIG domain containing 2; GIY-YIG domain-containing protein 1

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_001009292.1 → NP_001009292.1 structure-specific endonuclease subunit SLX1

See identical proteins and their annotated locations for NP_001009292.1

Status: PROVISIONAL

Source sequence(s)

BC087090

UniProtKB/Swiss-Prot

Q5PQP5

UniProtKB/TrEMBL

A6I9A8, A6I9A9

Related

ENSRNOP00000026231.4, ENSRNOT00000026231.5

Conserved Domains (1) summary

cd10455
Location:10 → 85

GIY-YIG_SLX1; Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its eukaryotic homologs