Chia chitinase, acidic [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Chiaprovided by RGD
Official Full Name: chitinase, acidicprovided by RGD
Primary source: RGD:1303058
See related: EnsemblRapid:ENSRNOG00000033162 AllianceGenome:RGD:1303058
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: Enables chitinase activity. Involved in chitin catabolic process. Located in extracellular region. Biomarker of cryptococcosis and silicosis. Human ortholog(s) of this gene implicated in asthma. Orthologous to human CHIA (chitinase acidic). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Restricted expression toward (RPKM 237.3) See more
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Genomic context

Location:: 2q34

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (196302687..196344849)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (193614374..193656532)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (208750348..208797388)

Chromosome 2 - NC_086020.1 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 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?

Invasive pulmonary aspergillosis in immunocompromised rats caused a dramatic increase in chitinase activity.
Title: Evidence supporting a role for mammalian chitinases in efficacy of caspofungin against experimental aspergillosis in immunocompromised rats.
Report of cDNA that encodes a protein with a characteristic N-terminal 21 amino acid endoplasmic reticulum signal peptide; the putative protein is highly homologous to acidic mammalian chitinase (AMCase) precursor of mouse and human.
Title: Cloning of a rat lung fibrogenic factor.

Submit: New GeneRIF Correction

General gene information

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Markers

STS-M11220 (e-PCR)
- UniSTS:41482

GDB:374166 (e-PCR)
- UniSTS:156946

STS-M13207 (e-PCR)
- UniSTS:16160

G15899 (e-PCR)
- UniSTS:10107

BI288346 (e-PCR)
- UniSTS:246157

GDB:624806 (e-PCR)
- UniSTS:158361

GDB:624816 (e-PCR)
- UniSTS:158362

D5S2591 (e-PCR)
- UniSTS:72352

D1S3698 (e-PCR)
- UniSTS:474276

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chitin binding	IBA Inferred from Biological aspect of Ancestor more info
enables chitin binding	IEA Inferred from Electronic Annotation more info
enables chitin binding	ISO Inferred from Sequence Orthology more info
enables chitinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables chitinase activity	IDA Inferred from Direct Assay more info	PubMed
enables chitinase activity	IEA Inferred from Electronic Annotation more info
enables chitinase activity	ISO Inferred from Sequence Orthology more info
enables chitinase activity	ISS Inferred from Sequence or Structural Similarity more info
enables endochitinase activity	IEA Inferred from Electronic Annotation more info
enables kinase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in chitin catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in chitin catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in chitin catabolic process	IEA Inferred from Electronic Annotation more info
involved_in chitin catabolic process	ISO Inferred from Sequence Orthology more info
involved_in chitin catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in immune system process	IEA Inferred from Electronic Annotation more info
involved_in polysaccharide catabolic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of chemokine production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of chemokine production	ISS Inferred from Sequence or Structural Similarity more info
involved_in production of molecular mediator involved in inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in production of molecular mediator involved in inflammatory response	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
is_active_in extracellular region	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular region	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in extracellular space	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: acidic mammalian chitinase

Names: AMCase; eosinophil chemotactic cytokine; small acid mammalian chitinase

NP_997469.1

EC 3.2.1.14

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_207586.2 → NP_997469.1 acidic mammalian chitinase precursor

See identical proteins and their annotated locations for NP_997469.1

Status: PROVISIONAL

Source sequence(s)

AY486074

UniProtKB/Swiss-Prot

Q6RY07

UniProtKB/TrEMBL

A0A0G2K676

Related

ENSRNOP00000073705.2, ENSRNOT00000086321.3

Conserved Domains (3) summary

cd02872
Location:24 → 387

GH18_chitolectin_chitotriosidase; This conserved domain family includes a large number of catalytically inactive chitinase-like lectins (chitolectins) including YKL-39, YKL-40 (HCGP39), YM1, oviductin, and AMCase (acidic mammalian chitinase), as well as catalytically active ...

smart00494
Location:426 → 473

ChtBD2; Chitin-binding domain type 2

smart00636
Location:24 → 365

Glyco_18; Glyco_18 domain