Cdan1 codanin 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cdan1provided by RGD
Official Full Name: codanin 1provided by RGD
Primary source: RGD:1306771
See related: EnsemblRapid:ENSRNOG00000047427 AllianceGenome:RGD:1306771
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
Summary: Predicted to be involved in chromatin assembly and negative regulation of DNA replication. Predicted to act upstream of or within protein localization. Predicted to be located in cytosol; endomembrane system; and plasma membrane. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in congenital dyserythropoietic anemia and congenital dyserythropoietic anemia type Ia. Orthologous to human CDAN1 (codanin 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 99.3), Thymus (RPKM 96.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q35

Exon count:: 28

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (128129664..128143520, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (107675147..107689811, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (112660839..112676596, complement)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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 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

RH137349 (e-PCR)
- UniSTS:219437

RH142276 (e-PCR)
- UniSTS:231523

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in chromatin organization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within chromatin organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_positive_effect chromatin organization	ISO Inferred from Sequence Orthology more info
involved_in import into nucleus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	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 endomembrane system	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 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: codanin-1

Names: congenital dyserythropoietic anemia, type I

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_001430416.1 → NP_001417345.1 codanin-1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

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_086021.1 Reference GRCr8

Range

128129664..128143520 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008762204.4 → XP_008760426.2 codanin-1 isoform X2

UniProtKB/TrEMBL

D4A1U4

Conserved Domains (2) summary

PHA03247
Location:58 → 299

PHA03247; large tegument protein UL36; Provisional

pfam15296
Location:786 → 901

Codanin-1_C; Codanin-1 C-terminus
XM_039106816.2 → XP_038962744.1 codanin-1 isoform X1

Related

ENSRNOP00000014664.8, ENSRNOT00000014664.9

Conserved Domains (2) summary

PHA03247
Location:65 → 296

PHA03247; large tegument protein UL36; Provisional

pfam15296
Location:787 → 902

Codanin-1_C; Codanin-1 C-terminus

RNA

XR_005502957.2 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001107765.1: Suppressed sequence

Description

NM_001107765.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: CDAN1 (GeneID:146059).