smc3 structural maintenance of chromosomes 3 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: smc3provided by ZNC
Official Full Name: structural maintenance of chromosomes 3provided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-3196
See related: Ensembl:ENSDARG00000019000 AllianceGenome:ZFIN:ZDB-GENE-030131-3196
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: cspg6; im:7142991; wu:fb22e01; wu:fc30d07
Summary: Enables DNA-binding transcription factor activity, RNA polymerase II-specific. Involved in regulation of transcription by RNA polymerase II. Acts upstream of or within fin regeneration and mitotic sister chromatid cohesion. Predicted to be located in chromosome, centromeric region and nucleus. Predicted to be part of mitotic cohesin complex. Is expressed in several structures, including axis; blastoderm; digestive system; head; and nervous system. Used to study Cornelia de Lange syndrome. 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]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 22

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	22	NC_007133.7 (29858934..29906764, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	22	NC_007133.6 (29909739..29957569, complement)

Chromosome 22 - NC_007133.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

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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Markers

fe13c12.y1 (e-PCR)
- UniSTS:196142

fb22e01.x1 (e-PCR)
- UniSTS:203063

AI397388 (e-PCR)
- UniSTS:206655

AI722694 (e-PCR)
- UniSTS:205991

Gene Ontology Provided by ZFIN

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 transcription factor activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IPI Inferred from Physical Interaction more info	PubMed
enables double-stranded DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell division	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chromosome organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within fin regeneration	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within fin regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within meiotic cell cycle	IEA Inferred from Electronic Annotation more info
involved_in mitotic sister chromatid cohesion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within mitotic sister chromatid cohesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in chromosome, centromeric region	IEA Inferred from Electronic Annotation more info
part_of mitotic cohesin complex	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: structural maintenance of chromosomes protein 3

Names: chondroitin sulfate proteoglycan 6 (bamacan)

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_214689.1 → NP_999854.1 structural maintenance of chromosomes protein 3

See identical proteins and their annotated locations for NP_999854.1

Status: PROVISIONAL

Source sequence(s)

BC044408

UniProtKB/TrEMBL

Q803N2

Related

ENSDARP00000024411.7, ENSDART00000019786.9

Conserved Domains (7) summary

cd03272
Location:3 → 158

ABC_SMC3_euk; ATP-binding cassette domain of eukaryotic SMC3 proteins

smart00968
Location:530 → 642

SMC_hinge; SMC proteins Flexible Hinge Domain

COG1196
Location:1 → 1193

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

cl00459
Location:700 → 836

MIT_CorA-like; metal ion transporter CorA-like divalent cation transporter superfamily

cl12013
Location:388 → 482

BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature

cl21455
Location:1104 → 1198

P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

cl23720
Location:222 → 337

RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)