Sprtn SprT-like N-terminal domain [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sprtnprovided by RGD
Official Full Name: SprT-like N-terminal domainprovided by RGD
Primary source: RGD:1559496
See related: Ensembl:ENSRNOG00000021330 AllianceGenome:RGD:1559496
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1559496
Summary: Predicted to enable several functions, including DNA binding activity; K63-linked polyubiquitin modification-dependent protein binding activity; and metalloendopeptidase activity. Predicted to be involved in several processes, including DNA repair; positive regulation of protein ubiquitination; and protein autoprocessing. Predicted to be located in chromatin and nuclear speck. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Ruijs-Aalfs syndrome. Orthologous to human SPRTN (SprT-like N-terminal domain). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Testes (RPKM 110.3), Thymus (RPKM 56.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 19q12

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	19	NC_086037.1 (69754989..69762240)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	19	NC_051354.1 (52857612..52864864)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	19	NC_005118.4 (57649901..57657158)

Chromosome 19 - NC_086037.1 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: 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?

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables K63-linked polyubiquitin modification-dependent protein binding	IEA Inferred from Electronic Annotation more info
enables K63-linked polyubiquitin modification-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables K63-linked polyubiquitin modification-dependent protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables double-stranded DNA binding	IEA Inferred from Electronic Annotation more info
enables double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables double-stranded DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables metalloendopeptidase activity	IEA Inferred from Electronic Annotation more info
enables metalloendopeptidase activity	ISO Inferred from Sequence Orthology more info
enables metalloendopeptidase activity	ISS Inferred from Sequence or Structural Similarity more info
enables polyubiquitin modification-dependent protein binding	IBA Inferred from Biological aspect of Ancestor more info
enables single-stranded DNA binding	IEA Inferred from Electronic Annotation more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables single-stranded DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables ubiquitin binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in DNA damage response	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in DNA damage response	ISS Inferred from Sequence or Structural Similarity more info
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein ubiquitination	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein autoprocessing	IEA Inferred from Electronic Annotation more info
involved_in protein autoprocessing	ISO Inferred from Sequence Orthology more info
involved_in protein autoprocessing	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein-DNA covalent cross-linking repair	IEA Inferred from Electronic Annotation more info
involved_in protein-DNA covalent cross-linking repair	ISO Inferred from Sequence Orthology more info
involved_in protein-DNA covalent cross-linking repair	ISS Inferred from Sequence or Structural Similarity more info
involved_in proteolysis	IEA Inferred from Electronic Annotation more info
involved_in proteolysis	ISO Inferred from Sequence Orthology more info
involved_in proteolysis	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to UV	IEA Inferred from Electronic Annotation more info
involved_in response to UV	ISO Inferred from Sequence Orthology more info
involved_in response to UV	ISS Inferred from Sequence or Structural Similarity more info
involved_in translesion synthesis	IEA Inferred from Electronic Annotation more info
involved_in translesion synthesis	ISO Inferred from Sequence Orthology more info
involved_in translesion synthesis	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of chromatin	IEA Inferred from Electronic Annotation more info
part_of chromatin	ISO Inferred from Sequence Orthology more info
part_of chromatin	ISS Inferred from Sequence or Structural Similarity more info
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: DNA-dependent metalloprotease SPRTN

Names: protein with SprT-like domain at the N terminus; spartan; sprT-like domain-containing protein Spartan

NP_001386111.1

EC 3.4.24.-

XP_006255872.1

EC 3.4.24.-

XP_038953600.1

EC 3.4.24.-

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_001399182.1 → NP_001386111.1 DNA-dependent metalloprotease SPRTN

Status: VALIDATED

Source sequence(s)

JAXUCZ010000019

UniProtKB/Swiss-Prot

D3ZVU1

Related

ENSRNOP00000075544.2, ENSRNOT00000083572.2

Conserved Domains (3) summary

smart00734
Location:461 → 484

ZnF_Rad18; Rad18-like CCHC zinc finger

smart00731
Location:43 → 212

SprT; SprT homologues

TIGR00599
Location:375 → 484

rad18; DNA repair protein rad18

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086037.1 Reference GRCr8

Range

69754989..69762240

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039097672.1 → XP_038953600.1 DNA-dependent metalloprotease SPRTN isoform X2

Conserved Domains (3) summary

smart00734
Location:349 → 372

ZnF_Rad18; Rad18-like CCHC zinc finger

TIGR00599
Location:263 → 372

rad18; DNA repair protein rad18

cl19237
Location:1 → 100

DUF45; Protein of unknown function DUF45
XM_006255810.4 → XP_006255872.1 DNA-dependent metalloprotease SPRTN isoform X1

See identical proteins and their annotated locations for XP_006255872.1

UniProtKB/TrEMBL

A0A0G2KAV7, A6KJ26, D4AB73

Conserved Domains (2) summary

smart00734
Location:375 → 398

ZnF_Rad18; Rad18-like CCHC zinc finger

pfam10263
Location:2 → 127

SprT-like; SprT-like family

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001106199.1: Suppressed sequence

Description

NM_001106199.1: This RefSeq was removed because currently there is insufficient support for the transcript.