Cln8 CLN8, transmembrane ER and ERGIC protein [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cln8provided by RGD
Official Full Name: CLN8, transmembrane ER and ERGIC proteinprovided by RGD
Primary source: RGD:1359518
See related: Ensembl:ENSRNOG00000012565 AllianceGenome:RGD:1359518
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
Summary: Predicted to enable ceramide binding activity. Predicted to be involved in several processes, including ceramide metabolic process; cholesterol metabolic process; and lipid homeostasis. Predicted to act upstream of or within several processes, including adult walking behavior; glutamate reuptake; and neurofilament cytoskeleton organization. Predicted to be located in endoplasmic reticulum-Golgi intermediate compartment. Predicted to be active in endoplasmic reticulum. Human ortholog(s) of this gene implicated in neuronal ceroid lipofuscinosis 8 and neuronal ceroid lipofuscinosis 8 northern epilepsy variant. Orthologous to human CLN8 (CLN8 transmembrane ER and ERGIC protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 91.3), Heart (RPKM 48.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 16q12.5

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	16	NC_086034.1 (81451941..81462046, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	16	NC_051351.1 (74749662..74759553, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	16	NC_005115.4 (79828321..79838212, complement)

Chromosome 16 - NC_086034.1 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
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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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ceramide binding	IBA Inferred from Biological aspect of Ancestor more info
enables ceramide binding	ISO Inferred from Sequence Orthology more info
enables ceramide binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within adult locomotory behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within adult walking behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within associative learning	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in ceramide metabolic process	ISO Inferred from Sequence Orthology more info
involved_in ceramide metabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in cholesterol metabolic process	ISO Inferred from Sequence Orthology more info
involved_in cholesterol metabolic process	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within glutamate reuptake	ISO Inferred from Sequence Orthology more info
involved_in lipid homeostasis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within lysosome organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within macromolecule catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mitochondrial membrane organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within musculoskeletal movement	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in nervous system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in nervous system development	ISO Inferred from Sequence Orthology more info
involved_in nervous system development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within neurofilament cytoskeleton organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuromuscular process controlling balance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuromuscular process controlling posture	ISO Inferred from Sequence Orthology more info
acts_upstream_of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in phospholipid metabolic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within phospholipid metabolic process	ISO Inferred from Sequence Orthology more info
involved_in phospholipid metabolic process	ISO Inferred from Sequence Orthology more info
involved_in phospholipid metabolic process	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within photoreceptor cell maintenance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of cell size	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retina development in camera-type eye	ISO Inferred from Sequence Orthology more info
acts_upstream_of retinal rod cell apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within social behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within somatic motor neuron differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within spinal cord motor neuron differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within visual perception	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum-Golgi intermediate compartment	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum-Golgi intermediate compartment	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum-Golgi intermediate compartment membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in presynapse	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: protein CLN8

Names: ceroid-lipofuscinosis, neuronal 8

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.