Ssbp1 single stranded DNA binding protein 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ssbp1provided by RGD
Official Full Name: single stranded DNA binding protein 1provided by RGD
Primary source: RGD:3760
See related: EnsemblRapid:ENSRNOG00000012100 AllianceGenome:RGD:3760
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: Ssbp; mtSSB; Mt-SSB
Summary: Predicted to enable chromatin binding activity; protein homodimerization activity; and single-stranded DNA binding activity. Predicted to be involved in several processes, including DNA-templated DNA replication; positive regulation of mitochondrial DNA replication; and protein homotetramerization. Predicted to act upstream of or within mitochondrion organization. Predicted to be located in mitochondrion. Predicted to be active in mitochondrial nucleoid. Human ortholog(s) of this gene implicated in optic atrophy. Orthologous to human SSBP1 (single stranded DNA binding protein 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Heart (RPKM 70.0), Thymus (RPKM 63.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q23

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (70232740..70242824)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (69266024..69276135)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (68634844..68645112)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables enzyme activator activity	IBA Inferred from Biological aspect of Ancestor more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables single-stranded DNA 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 single-stranded DNA binding	NAS Non-traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA replication	IEA Inferred from Electronic Annotation more info
involved_in DNA unwinding involved in DNA replication	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA unwinding involved in DNA replication	IEA Inferred from Electronic Annotation more info
involved_in DNA unwinding involved in DNA replication	ISO Inferred from Sequence Orthology more info
involved_in mitochondrial genome maintenance	IBA Inferred from Biological aspect of Ancestor more info
involved_in mitochondrion organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mitochondrion organization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of helicase activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitochondrial DNA replication	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of mitochondrial DNA replication	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of mitochondrial DNA replication	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitochondrial DNA replication	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein homotetramerization	IEA Inferred from Electronic Annotation more info
involved_in protein homotetramerization	ISO Inferred from Sequence Orthology more info
involved_in protein homotetramerization	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
is_active_in mitochondrial nucleoid	IBA Inferred from Biological aspect of Ancestor more info
located_in mitochondrial nucleoid	IEA Inferred from Electronic Annotation more info
located_in mitochondrial nucleoid	ISO Inferred from Sequence Orthology more info
located_in mitochondrial nucleoid	ISS Inferred from Sequence or Structural Similarity more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: single-stranded DNA-binding protein, mitochondrial

Names: single strand DNA-binding protein P16; single-stranded DNA binding protein 1, mitochondrial

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_183328.3 → NP_899157.2 single-stranded DNA-binding protein, mitochondrial precursor

Status: VALIDATED

Source sequence(s)

FM064958

UniProtKB/Swiss-Prot

P28042

UniProtKB/TrEMBL

A0A0G2K747, A6IEX3

Conserved Domains (1) summary

cl09930
Location:27 → 141

RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.

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_086022.1 Reference GRCr8

Range

70232740..70242824

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008762824.4 → XP_008761046.1 single-stranded DNA-binding protein, mitochondrial isoform X1

See identical proteins and their annotated locations for XP_008761046.1

UniProtKB/TrEMBL

A0A8I5ZMF6, A6IEX6, G3V7K6

Conserved Domains (2) summary

COG0629
Location:29 → 134

Ssb; Single-stranded DNA-binding protein [Replication, recombination and repair]

cl09930
Location:27 → 142

RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.
XM_063286633.1 → XP_063142703.1 single-stranded DNA-binding protein, mitochondrial isoform X3
XM_063286630.1 → XP_063142700.1 single-stranded DNA-binding protein, mitochondrial isoform X2

UniProtKB/TrEMBL

A0A0G2K747, A6IEX3
XM_008762822.4 → XP_008761044.1 single-stranded DNA-binding protein, mitochondrial isoform X1

See identical proteins and their annotated locations for XP_008761044.1

UniProtKB/TrEMBL

A0A8I5ZMF6, A6IEX6, G3V7K6

Related

ENSRNOP00000078954.1, ENSRNOT00000105168.2

Conserved Domains (2) summary

COG0629
Location:29 → 134

Ssb; Single-stranded DNA-binding protein [Replication, recombination and repair]

cl09930
Location:27 → 142

RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.
XM_039108287.2 → XP_038964215.1 single-stranded DNA-binding protein, mitochondrial isoform X2

UniProtKB/Swiss-Prot

P28042

UniProtKB/TrEMBL

A0A0G2K747, A6IEX3

Conserved Domains (1) summary

cl09930
Location:27 → 141

RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.
XM_063286627.1 → XP_063142697.1 single-stranded DNA-binding protein, mitochondrial isoform X2

UniProtKB/TrEMBL

A0A0G2K747, A6IEX3

Related

ENSRNOP00000074061.2, ENSRNOT00000081178.3
XM_063286625.1 → XP_063142695.1 single-stranded DNA-binding protein, mitochondrial isoform X1

UniProtKB/TrEMBL

A0A8I5ZMF6, A6IEX6
XM_063286628.1 → XP_063142698.1 single-stranded DNA-binding protein, mitochondrial isoform X2

UniProtKB/TrEMBL

A0A0G2K747, A6IEX3
XM_063286629.1 → XP_063142699.1 single-stranded DNA-binding protein, mitochondrial isoform X2

UniProtKB/TrEMBL

A0A0G2K747, A6IEX3
XM_008762827.3 → XP_008761049.1 single-stranded DNA-binding protein, mitochondrial isoform X2

See identical proteins and their annotated locations for XP_008761049.1

UniProtKB/Swiss-Prot

P28042

UniProtKB/TrEMBL

A0A0G2K747, A6IEX3

Related

ENSRNOP00000016217.6, ENSRNOT00000016217.7

Conserved Domains (1) summary

cl09930
Location:27 → 141

RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.
XM_063286631.1 → XP_063142701.1 single-stranded DNA-binding protein, mitochondrial isoform X2

UniProtKB/TrEMBL

A0A0G2K747, A6IEX3
XM_063286634.1 → XP_063142704.1 single-stranded DNA-binding protein, mitochondrial isoform X3
XM_008762825.4 → XP_008761047.1 single-stranded DNA-binding protein, mitochondrial isoform X1

See identical proteins and their annotated locations for XP_008761047.1

UniProtKB/TrEMBL

A0A8I5ZMF6, A6IEX6, G3V7K6

Conserved Domains (2) summary

COG0629
Location:29 → 134

Ssb; Single-stranded DNA-binding protein [Replication, recombination and repair]

cl09930
Location:27 → 142

RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.
XM_063286635.1 → XP_063142705.1 single-stranded DNA-binding protein, mitochondrial isoform X3
XM_008762826.4 → XP_008761048.1 single-stranded DNA-binding protein, mitochondrial isoform X1

See identical proteins and their annotated locations for XP_008761048.1

UniProtKB/TrEMBL

A0A8I5ZMF6, A6IEX6, G3V7K6

Conserved Domains (2) summary

COG0629
Location:29 → 134

Ssb; Single-stranded DNA-binding protein [Replication, recombination and repair]

cl09930
Location:27 → 142

RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.
XM_008762829.2 → XP_008761051.1 single-stranded DNA-binding protein, mitochondrial isoform X3

UniProtKB/Swiss-Prot

P28042

Conserved Domains (1) summary

cl09930
Location:27 → 140

RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.
XM_063286626.1 → XP_063142696.1 single-stranded DNA-binding protein, mitochondrial isoform X1

UniProtKB/TrEMBL

A0A8I5ZMF6, A6IEX6
XM_063286632.1 → XP_063142702.1 single-stranded DNA-binding protein, mitochondrial isoform X3

Related

ENSRNOP00000110523.1, ENSRNOT00000151080.1
XM_008762823.4 → XP_008761045.1 single-stranded DNA-binding protein, mitochondrial isoform X1

See identical proteins and their annotated locations for XP_008761045.1

UniProtKB/TrEMBL

A0A8I5ZMF6, A6IEX6, G3V7K6

Conserved Domains (2) summary

COG0629
Location:29 → 134

Ssb; Single-stranded DNA-binding protein [Replication, recombination and repair]

cl09930
Location:27 → 142

RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.