Smc3 structural maintenance of chromosomes 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Smc3provided by RGD
Official Full Name: structural maintenance of chromosomes 3provided by RGD
Primary source: RGD:62006
See related: EnsemblRapid:ENSRNOG00000014173 AllianceGenome:RGD:62006
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: Cspg6; SMC-3; bamacan
Summary: Predicted to enable several functions, including beta-tubulin binding activity; dynein complex binding activity; and mediator complex binding activity. Involved in meiotic cell cycle. Located in basement membrane and synaptonemal complex. Human ortholog(s) of this gene implicated in Cornelia de Lange syndrome 3; hepatocellular carcinoma; and intellectual disability. Orthologous to human SMC3 (structural maintenance of chromosomes 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 249.9), Lung (RPKM 201.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q55

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (262606731..262649832)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (252601422..252644522)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (274310120..274352856)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

Data describe alterations of myocardial intercellular and cell-matrix contacts in hypertrophic tissue, and show intracellular translocation of beta-catenin, alpha-actinin and chondroitin sulfate proteoglycan 6 in both an animal model and in LVH patients.
Title: Expression and tissue localization of beta-catenin, alpha-actinin and chondroitin sulfate proteoglycan 6 is modulated during rat and human left ventricular hypertrophy.

Submit: New GeneRIF Correction

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 ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
enables beta-tubulin binding	IEA Inferred from Electronic Annotation more info
enables beta-tubulin binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables double-stranded DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables dynein complex binding	IEA Inferred from Electronic Annotation more info
enables dynein complex binding	ISO Inferred from Sequence Orthology more info
enables dynein complex binding	ISS Inferred from Sequence or Structural Similarity more info
enables mediator complex binding	IEA Inferred from Electronic Annotation more info
enables mediator complex binding	ISO Inferred from Sequence Orthology more info
enables protein heterodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in cell division	IEA Inferred from Electronic Annotation more info
involved_in chromosome organization	IEA Inferred from Electronic Annotation more info
involved_in meiotic cell cycle	IEA Inferred from Electronic Annotation more info
involved_in meiotic cell cycle	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within meiotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in meiotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in meiotic cell cycle	ISS Inferred from Sequence or Structural Similarity more info
involved_in mitotic sister chromatid cohesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in mitotic spindle assembly	IEA Inferred from Electronic Annotation more info
involved_in mitotic spindle assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA replication	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA replication	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA replication	ISS Inferred from Sequence or Structural Similarity more info
involved_in sister chromatid cohesion	IEA Inferred from Electronic Annotation more info
involved_in sister chromatid cohesion	ISO Inferred from Sequence Orthology more info
involved_in stem cell population maintenance	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within stem cell population maintenance	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in basement membrane	IDA Inferred from Direct Assay more info	PubMed
located_in basement membrane	TAS Traceable Author Statement more info	PubMed
located_in chromatin	IEA Inferred from Electronic Annotation more info
located_in chromatin	ISO Inferred from Sequence Orthology more info
located_in chromatin	ISS Inferred from Sequence or Structural Similarity more info
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in chromosome, centromeric region	IEA Inferred from Electronic Annotation more info
part_of cohesin complex	ISO Inferred from Sequence Orthology more info
located_in lateral element	IEA Inferred from Electronic Annotation more info
located_in lateral element	ISO Inferred from Sequence Orthology more info
part_of meiotic cohesin complex	IEA Inferred from Electronic Annotation more info
part_of meiotic cohesin complex	ISO Inferred from Sequence Orthology more info
part_of meiotic cohesin complex	ISS Inferred from Sequence or Structural Similarity more info
part_of mitotic cohesin complex	IBA Inferred from Biological aspect of Ancestor more info
part_of mitotic cohesin complex	IEA Inferred from Electronic Annotation more info
part_of mitotic cohesin complex	ISO Inferred from Sequence Orthology more info
located_in mitotic spindle pole	IEA Inferred from Electronic Annotation more info
located_in mitotic spindle pole	ISO Inferred from Sequence Orthology more info
located_in mitotic spindle pole	ISS Inferred from Sequence or Structural Similarity more info
located_in nuclear matrix	IEA Inferred from Electronic Annotation more info
located_in nuclear matrix	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	ISS Inferred from Sequence or Structural Similarity 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	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in synaptonemal complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: structural maintenance of chromosomes protein 3

Names: SMC protein 3; basement membrane chondroitin sulfate proteoglycan; basement membrane-associated chondroitin proteoglycan; chondroitin sulfate proteoglycan 6; chromosome segregation protein SmcD; structural maintenace of chromosomes 3

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_031583.2 → NP_113771.2 structural maintenance of chromosomes protein 3

See identical proteins and their annotated locations for NP_113771.2

Status: VALIDATED

Source sequence(s)

BE109731, BF396983, BP486487, BP499171, CA509998, CA511001, CO395251, EV773232, EV776219

UniProtKB/Swiss-Prot

P97690

UniProtKB/TrEMBL

A6JHW2

Related

ENSRNOP00000051571.3, ENSRNOT00000054686.4

Conserved Domains (1) summary

COG1196
Location:1 → 1194

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

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_086019.1 Reference GRCr8

Range

262606731..262649832

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039109434.2 → XP_038965362.1 structural maintenance of chromosomes protein 3 isoform X1

UniProtKB/Swiss-Prot

P97690

Conserved Domains (1) summary

COG1196
Location:1 → 1170

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]