Smc1a structural maintenance of chromosomes 1A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Smc1aprovided by RGD
Official Full Name: structural maintenance of chromosomes 1Aprovided by RGD
Primary source: RGD:61991
See related: EnsemblRapid:ENSRNOG00000003139 AllianceGenome:RGD:61991
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: SB1.8; SMC-1A; Smc1l1
Summary: Predicted to enable several functions, including chromatin binding activity; mediator complex binding activity; and protein heterodimerization activity. Involved in meiotic cell cycle. Located in lateral element and nucleoplasm. Biomarker of type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in Cornelia de Lange syndrome 2; congestive heart failure; and developmental and epileptic encephalopathy 85. Orthologous to human SMC1A (structural maintenance of chromosomes 1A). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 315.6), Spleen (RPKM 243.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: Xq13

Exon count:: 25

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (24582732..24627462)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (21103323..21148053)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (21710976..21755708)

Chromosome X - NC_086039.1 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?

These results suggest that SMC1A upregulation is involved in the pathogenesis of glioma.
Title: Knocking down SMC1A inhibits growth and leads to G2/M arrest in human glioma cells.
Studied the DNA binding activity of human CDX2. Three CDX2-binding proteins were found in rat gastric tissue, and those proteins were identified to the homeobox protein Hox-D8, LIM homeobox protein 6, and SMC1L1 protein.
Title: Purification of caudal-related homeodomain transcription factor and its binding characterization.
Taken together, our data suggest that not only EGFR but also its other members are involved in regulating colonic mucosal growth during aging and that CARP-1 may play a crucial role in transducing EGFRs signals.
Title: Cell cycle and apoptosis regulatory protein-1: a novel regulator of apoptosis in the colonic mucosa during aging.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH129456 (e-PCR)
- UniSTS:212762

RH129467 (e-PCR)
- UniSTS:212773

DXS423 (e-PCR)
- UniSTS:99130

RH143344 (e-PCR)
- UniSTS:232591

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 DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables chromatin 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 meiotic cell cycle	IDA Inferred from Direct Assay more info	PubMed
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 mitotic spindle assembly	IEA Inferred from Electronic Annotation more info
involved_in mitotic spindle assembly	ISO Inferred from Sequence Orthology more info
involved_in response to DNA damage checkpoint signaling	IEA Inferred from Electronic Annotation more info
involved_in response to DNA damage checkpoint signaling	ISO Inferred from Sequence Orthology more info
involved_in response to DNA damage checkpoint signaling	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to radiation	IEA Inferred from Electronic Annotation more info
involved_in response to radiation	ISO Inferred from Sequence Orthology more info
involved_in response to radiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in sister chromatid cohesion	IBA Inferred from Biological aspect of Ancestor 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 somatic stem cell population maintenance	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within somatic stem cell population maintenance	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of cohesin complex	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in kinetochore	IEA Inferred from Electronic Annotation more info
located_in kinetochore	ISO Inferred from Sequence Orthology more info
located_in kinetochore	ISS Inferred from Sequence or Structural Similarity more info
located_in lateral element	IDA Inferred from Direct Assay more info	PubMed
part_of meiotic cohesin complex	IBA Inferred from Biological aspect of Ancestor 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	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 nuclear matrix	IEA Inferred from Electronic Annotation more info
located_in nuclear matrix	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IEA Inferred from Electronic Annotation 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	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity 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 1A

Names: DXhXs423e; SMC (segregation of mitotic chromosomes 1)-like 1; SMC protein 1A; SMC-like 1; SMC-protein; segregation of mitotic chromosomes-like 1; structural maintenance of chromosomes 1 like 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_031683.2 → NP_113871.2 structural maintenance of chromosomes protein 1A

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000021

UniProtKB/Swiss-Prot

Q9Z1M9

UniProtKB/TrEMBL

A6KLB2, F1LSS1

Related

ENSRNOP00000004364.7, ENSRNOT00000004364.9

Conserved Domains (1) summary

pfam02463
Location:3 → 1210

SMC_N; RecF/RecN/SMC N terminal domain