Ndc1 NDC1 transmembrane nucleoporin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ndc1provided by RGD
Official Full Name: NDC1 transmembrane nucleoporinprovided by RGD
Primary source: RGD:1560173
See related: Ensembl:ENSRNOG00000010620 AllianceGenome:RGD:1560173
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: Tmem48
Summary: Predicted to enable protein-macromolecule adaptor activity. Predicted to be a structural constituent of nuclear pore. Predicted to be involved in nuclear pore complex assembly and nuclear pore localization. Predicted to act upstream of or within homologous chromosome pairing at meiosis and spermatogenesis. Predicted to be located in several cellular components, including actin cytoskeleton; nuclear membrane; and plasma membrane. Predicted to be part of nuclear pore transmembrane ring. Orthologous to human NDC1 (NDC1 transmembrane nucleoporin). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Testes (RPKM 69.5), Thymus (RPKM 66.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q34

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (127384172..127431093)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (122155992..122202295)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (126976636..127022941)

Chromosome 5 - NC_086023.1 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
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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Markers

RH142639 (e-PCR)
- UniSTS:231886

AU048177 (e-PCR)
- UniSTS:109795

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables protein-macromolecule adaptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables structural constituent of nuclear pore	IEA Inferred from Electronic Annotation more info
enables structural constituent of nuclear pore	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in homologous chromosome pairing at meiosis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within homologous chromosome pairing at meiosis	ISO Inferred from Sequence Orthology more info
involved_in mRNA transport	IEA Inferred from Electronic Annotation more info
involved_in nuclear pore complex assembly	IEA Inferred from Electronic Annotation more info
involved_in nuclear pore complex assembly	ISO Inferred from Sequence Orthology more info
involved_in nuclear pore localization	IEA Inferred from Electronic Annotation more info
involved_in nuclear pore localization	ISO Inferred from Sequence Orthology more info
involved_in nuclear pore organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in nucleocytoplasmic transport	IEA Inferred from Electronic Annotation more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info
involved_in spermatogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within spermatogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in actin cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in actin cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in nuclear envelope	ISO Inferred from Sequence Orthology more info
located_in nuclear membrane	IEA Inferred from Electronic Annotation more info
located_in nuclear membrane	ISO Inferred from Sequence Orthology more info
part_of nuclear pore	IEA Inferred from Electronic Annotation more info
part_of nuclear pore	ISO Inferred from Sequence Orthology more info
part_of nuclear pore transmembrane ring	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: nucleoporin NDC1

Names: transmembrane protein 48

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.