Cilp cartilage intermediate layer protein [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cilpprovided by RGD
Official Full Name: cartilage intermediate layer proteinprovided by RGD
Primary source: RGD:1305124
See related: EnsemblRapid:ENSRNOG00000029911 AllianceGenome:RGD:1305124
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 carbohydrate binding activity. Predicted to be involved in negative regulation of gene expression and negative regulation of signal transduction. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Human ortholog(s) of this gene implicated in osteoarthritis. Orthologous to human CILP (cartilage intermediate layer protein). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Muscle (RPKM 170.5), Heart (RPKM 45.0) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q24

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (74671696..74687420)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (65777281..65792251)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (70760922..70775891)

Chromosome 8 - NC_086026.1 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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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
NOT enables alkaline phosphatase activity	ISO Inferred from Sequence Orthology more info
enables carbohydrate binding	IEA Inferred from Electronic Annotation more info
NOT enables dinucleotide phosphatase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in negative regulation of SMAD protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of insulin-like growth factor receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transforming growth factor beta receptor signaling pathway	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in collagen-containing extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
located_in collagen-containing extracellular matrix	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: cartilage intermediate layer protein 1

Names: cartilage intermediate layer protein, nucleotide pyrophosphohydrolase

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_001108161.1 → NP_001101631.1 cartilage intermediate layer protein 1 precursor

See identical proteins and their annotated locations for NP_001101631.1

Status: PROVISIONAL

Source sequence(s)

CH473975

UniProtKB/TrEMBL

A6J5E6, D3ZGB8

Conserved Domains (6) summary

smart00408
Location:323 → 383

IGc2; Immunoglobulin C-2 Type

smart00209
Location:152 → 200

TSP1; Thrombospondin type 1 repeats

smart00410
Location:315 → 394

IG_like; Immunoglobulin like

pfam13330
Location:55 → 139

Mucin2_WxxW; Mucin-2 protein WxxW repeating region

pfam13620
Location:226 → 288

CarboxypepD_reg; Carboxypeptidase regulatory-like domain

pfam13715
Location:492 → 592

CarbopepD_reg_2; CarboxypepD_reg-like domain