Tonsl tonsoku-like, DNA repair protein [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tonslprovided by RGD
Official Full Name: tonsoku-like, DNA repair proteinprovided by RGD
Primary source: RGD:1307483
See related: EnsemblRapid:ENSRNOG00000014703 AllianceGenome:RGD:1307483
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: Nfkbil2
Summary: Predicted to enable histone binding activity and histone reader activity. Predicted to be involved in double-strand break repair via homologous recombination; protein localization to chromatin; and replication fork processing. Predicted to be located in nuclear body. Predicted to be part of DNA replication factor A complex; FACT complex; and MCM complex. Predicted to be active in nuclear replication fork and site of double-strand break. Human ortholog(s) of this gene implicated in spondyloepimetaphyseal dysplasia, Sponastrime type. Orthologous to human TONSL (tonsoku like, DNA repair protein). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in Spleen (RPKM 14.1), Lung (RPKM 13.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q34

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (110226696..110241459, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (108345704..108360792, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (117688397..117703139, complement)

Chromosome 7 - NC_086025.1 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 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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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables histone binding	ISO Inferred from Sequence Orthology more info
enables histone binding	ISS Inferred from Sequence or Structural Similarity more info
enables histone reader activity	ISO Inferred from Sequence Orthology more info
enables histone reader activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in chromatin organization	IEA Inferred from Electronic Annotation 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 double-strand break repair via homologous recombination	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein localization to chromatin	ISO Inferred from Sequence Orthology more info
involved_in replication fork processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in replication fork processing	ISO Inferred from Sequence Orthology more info
involved_in replication fork processing	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of DNA replication factor A complex	ISO Inferred from Sequence Orthology more info
part_of DNA replication factor A complex	ISS Inferred from Sequence or Structural Similarity more info
part_of FACT complex	ISO Inferred from Sequence Orthology more info
part_of FACT complex	ISS Inferred from Sequence or Structural Similarity more info
part_of MCM complex	ISO Inferred from Sequence Orthology more info
part_of MCM complex	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nuclear body	IEA Inferred from Electronic Annotation more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
is_active_in nuclear replication fork	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nuclear replication fork	ISO Inferred from Sequence Orthology more info
located_in nuclear replication fork	ISO Inferred from Sequence Orthology more info
located_in nuclear replication fork	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in site of double-strand break	ISO Inferred from Sequence Orthology more info
is_active_in site of double-strand break	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: tonsoku-like protein

Names: I-kappa-B-related protein; NF-kappa-B inhibitor-like protein 2; ikappaBR; inhibitor of kappa B-related protein; nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 2

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_001130572.1 → NP_001124044.1 tonsoku-like protein

See identical proteins and their annotated locations for NP_001124044.1

Status: PROVISIONAL

Source sequence(s)

CH473950

UniProtKB/Swiss-Prot

D4A615

Related

ENSRNOP00000019754.4, ENSRNOT00000019754.6

Conserved Domains (8) summary

COG0457
Location:187 → 464

TPR; Tetratricopeptide (TPR) repeat [General function prediction only]

cd00116
Location:1055 → 1311

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

cd00204
Location:523 → 635

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

sd00033
Location:1065 → 1092

LRR_RI; leucine-rich repeat [structural motif]

sd00006
Location:163 → 190

TPR; TPR repeat [structural motif]

pfam12796
Location:533 → 627

Ank_2; Ankyrin repeats (3 copies)

pfam13424
Location:27 → 97

TPR_12; Tetratricopeptide repeat

sd00045
Location:528 → 559

ANK; ANK repeat [structural motif]

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_086025.1 Reference GRCr8

Range

110226696..110241459 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008765587.4 → XP_008763809.1 tonsoku-like protein isoform X1

Conserved Domains (7) summary

COG0457
Location:187 → 464

TPR; Tetratricopeptide (TPR) repeat [General function prediction only]

cd00116
Location:1059 → 1315

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

cd00204
Location:527 → 639

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

sd00033
Location:1069 → 1096

LRR_RI; leucine-rich repeat [structural motif]

sd00006
Location:163 → 190

TPR; TPR repeat [structural motif]

pfam12796
Location:537 → 631

Ank_2; Ankyrin repeats (3 copies)

sd00045
Location:532 → 563

ANK; ANK repeat [structural motif]
XM_063264054.1 → XP_063120124.1 tonsoku-like protein isoform X3
XM_008765588.4 → XP_008763810.1 tonsoku-like protein isoform X2

Conserved Domains (7) summary

COG0457
Location:187 → 464

TPR; Tetratricopeptide (TPR) repeat [General function prediction only]

cd00116
Location:1059 → 1300

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

cd00204
Location:527 → 639

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

sd00033
Location:1069 → 1096

LRR_RI; leucine-rich repeat [structural motif]

sd00006
Location:163 → 190

TPR; TPR repeat [structural motif]

pfam12796
Location:537 → 631

Ank_2; Ankyrin repeats (3 copies)

sd00045
Location:532 → 563

ANK; ANK repeat [structural motif]
XM_063264055.1 → XP_063120125.1 tonsoku-like protein isoform X4