Csta2 (cystatin A family member 2) - Rat Genome Database

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Gene: Csta2 (cystatin A family member 2) Mus musculus
Analyze
Symbol: Csta2
Name: cystatin A family member 2
RGD ID: 1322022
MGI Page MGI
Description: Predicted to enable cysteine-type endopeptidase inhibitor activity and protease binding activity. Predicted to be involved in cell-cell adhesion; keratinocyte differentiation; and negative regulation of proteolysis. Predicted to be located in several cellular components, including cornified envelope; extracellular space; and nucleoplasm. Predicted to be part of peptidase inhibitor complex. Predicted to be active in cytosol. Human ortholog(s) of this gene implicated in peeling skin syndrome. Orthologous to human CSTA (cystatin A).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 2010005H15Rik; Cystatin-A-like; hypothetical protein LOC76770; RIKEN cDNA 2010005H15 gene; uncharacterized protein LOC76770
RGD Orthologs
Human
Rat
Pig
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391636,041,932 - 36,077,813 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1636,041,838 - 36,077,810 (+)EnsemblGRCm39 Ensembl
GRCm381636,221,562 - 36,257,447 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1636,221,468 - 36,257,444 (+)EnsemblGRCm38mm10GRCm38
MGSCv371636,221,648 - 36,257,513 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361636,140,707 - 36,176,683 (+)NCBIMGSCv36mm8
Celera1636,705,569 - 36,744,619 (+)NCBICelera
Cytogenetic Map16B3NCBI
cM Map1625.44NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-alpha-phellandrene  (ISO)
(-)-demecolcine  (ISO)
17beta-estradiol  (ISO)
17beta-estradiol 3-benzoate  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-acetamidofluorene  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
acetylsalicylic acid  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-phellandrene  (ISO)
ammonium chloride  (ISO)
ampicillin  (ISO)
arsenous acid  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (EXP,ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (EXP)
cisplatin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
epoxiconazole  (EXP)
ethyl methanesulfonate  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
glycidyl methacrylate  (ISO)
hydroxyurea  (ISO)
indometacin  (ISO)
lead(0)  (ISO)
lipopolysaccharide  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
ochratoxin A  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
pentanal  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenylmercury acetate  (ISO)
phytoestrogen  (ISO)
pirinixic acid  (EXP)
progesterone  (ISO)
propanal  (ISO)
quercetin  (ISO)
quinolin-8-ol  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
testosterone  (ISO)
trichloroethene  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
valproic acid  (ISO)
vincristine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:16141072   PMID:16141073   PMID:21873635  


Genomics

Comparative Map Data
Csta2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391636,041,932 - 36,077,813 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1636,041,838 - 36,077,810 (+)EnsemblGRCm39 Ensembl
GRCm381636,221,562 - 36,257,447 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1636,221,468 - 36,257,444 (+)EnsemblGRCm38mm10GRCm38
MGSCv371636,221,648 - 36,257,513 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361636,140,707 - 36,176,683 (+)NCBIMGSCv36mm8
Celera1636,705,569 - 36,744,619 (+)NCBICelera
Cytogenetic Map16B3NCBI
cM Map1625.44NCBI
CSTA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383122,325,248 - 122,341,969 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3122,325,248 - 122,341,969 (+)EnsemblGRCh38hg38GRCh38
GRCh373122,044,095 - 122,060,816 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363123,526,701 - 123,543,506 (+)NCBINCBI36Build 36hg18NCBI36
Build 343123,526,772 - 123,543,201NCBI
Celera3120,453,644 - 120,470,444 (+)NCBICelera
Cytogenetic Map3q21.1NCBI
HuRef3119,417,505 - 119,434,132 (+)NCBIHuRef
CHM1_13122,007,529 - 122,024,338 (+)NCBICHM1_1
T2T-CHM13v2.03125,044,823 - 125,061,527 (+)NCBIT2T-CHM13v2.0
Csta
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81178,125,813 - 78,136,818 (+)NCBIGRCr8
mRatBN7.21164,620,483 - 64,631,488 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1164,620,483 - 64,631,488 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1173,445,448 - 73,456,477 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01166,107,709 - 66,118,738 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01165,138,957 - 65,149,986 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01167,555,792 - 67,566,980 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1167,555,658 - 67,566,972 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01170,643,269 - 70,654,457 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41166,456,248 - 66,467,253 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11166,513,871 - 66,524,843 (+)NCBI
Celera1164,089,125 - 64,100,127 (+)NCBICelera
Cytogenetic Map11q22NCBI
LOC396867
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13138,181,723 - 138,236,860 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113138,216,027 - 138,226,397 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213147,854,121 - 147,859,830 (-)NCBISscrofa10.2Sscrofa10.2susScr3

Variants

.
Variants in Csta2
1157 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:42
Count of miRNA genes:41
Interacting mature miRNAs:42
Transcripts:ENSMUST00000063539
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27095908Scvln7_msacral vertebrae length 2, 5 week (mouse)16331786439820362Mouse
27226768Tibl9_mtibia length 9, 5 week (mouse)16331786451420363Mouse
27226785Feml12_mfemur length 12, 5 week (mouse)16331786464620363Mouse
26884432Zlq7_mzygomatic length QTL 7, 10 week (mouse)16381786464620363Mouse
38501069Tip4_mtuberculosis immunophenotype 4, IFN-g level (mouse)16431786444520363Mouse
1301443Mopkd2_mmodifier of polycystic kidney disease progression 2 (mouse)Not determined16464631438646414Mouse
1300656Bgeq15_mbody growth early QTL 15 (mouse)Not determined16577525239775440Mouse
1301945Skl7_mskeletal size (tail length) 7 (mouse)Not determined16577525239775440Mouse
1300943Skts9_mskin tumor susceptibility 9 (mouse)Not determined16577525239775440Mouse
1300987Skull23_mskull morphology 23 (mouse)Not determined16577525239775440Mouse
1357763Lp1_mlymphocyte proliferation 1 (mouse)Not determined16654297965466552Mouse
11251724Ewc6_methanol withdrawal and consumption 6 (mouse)16822605242226052Mouse
26884376Skwq4_mskull length QTL 4, 5 week (mouse)16841786490896888Mouse
10043978Obq35_mobesity QTL 35 (mouse)Not determined16988163143881631Mouse
1301086Lprm5_mlymphoproliferation modifier 5 (mouse)Not determined161184882445848923Mouse
1301841Lrnx9_mlearning-contextual 9 (mouse)Not determined161222536046225471Mouse
10045614Rapop6_mradiation-induced apoptosis 6 (mouse)Not determined161480292148803032Mouse
4142236Pstc4_mperiosteal circumference 4 (mouse)Not determined161552290949523112Mouse
1357517Bwtn1_mbody weight at necropsy 1 (mouse)Not determined162001932985600826Mouse
1300534Bmd15_mbone mineral density 15 (mouse)Not determined162193838355938574Mouse
4141179Ipng3_mimprinted postnatal growth 3 (mouse)Not determined2277525257594076Mouse
15092062Egrme4_mearly growth rate, maternal effect 4 (mouse)162521866444220250Mouse
11059559Lmr12a_mleishmaniasis resistance 12a (mouse)162879281362792952Mouse
11059560Lmr12b_mleishmaniasis resistance 12b (mouse)162879281362792952Mouse
11049571Lmr12c_mleishmaniasis resistance 12c (mouse)162879281362792952Mouse
1300915Lmr12_mleishmaniasis resistance 12 (mouse)Not determined162879281362792952Mouse
25671380Hrsq2_mhost response to SARS QTL 2, titer (mouse)163140250136540273Mouse
1301070Cypr1_mcytokine production 1 (mouse)Not determined163231279566312933Mouse
4142187Arrd3_mage-related retinal degeneration 3 (mouse)Not determined3252290965466552Mouse
1302096Aod1a_mautoimmune ovarian dysgenesis 1a (mouse)Not determined163544664392573008Mouse
10412263Gvhd6_mgraft-versus host disease 6 (mouse)Not determined163606085745511148Mouse

Markers in Region
D16Mit4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381636,240,487 - 36,240,618UniSTSGRCm38
MGSCv371636,240,573 - 36,240,704UniSTSGRCm37
Celera1636,724,778 - 36,724,909UniSTS
Cytogenetic Map16B3UniSTS
cM Map1627.3UniSTS
Whitehead Genetic1625.1UniSTS
Whitehead/MRC_RH16346.4UniSTS
Whitehead_YAC16 UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000063539   ⟹   ENSMUSP00000067712
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1636,073,416 - 36,077,738 (+)Ensembl
GRCm38.p6 Ensembl1636,253,046 - 36,257,372 (+)Ensembl
RefSeq Acc Id: ENSMUST00000187183   ⟹   ENSMUSP00000140745
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1636,041,838 - 36,077,810 (+)Ensembl
GRCm38.p6 Ensembl1636,221,468 - 36,257,444 (+)Ensembl
RefSeq Acc Id: ENSMUST00000187742   ⟹   ENSMUSP00000139876
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1636,041,932 - 36,077,793 (+)Ensembl
GRCm38.p6 Ensembl1636,221,562 - 36,257,427 (+)Ensembl
RefSeq Acc Id: NM_001384090   ⟹   NP_001371019
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391636,073,368 - 36,077,813 (+)NCBI
GRCm381636,252,998 - 36,257,447 (+)NCBI
Sequence:
RefSeq Acc Id: NM_029733   ⟹   NP_084009
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391636,041,932 - 36,077,793 (+)NCBI
GRCm381636,221,562 - 36,257,427 (+)NCBI
MGSCv371636,221,648 - 36,257,513 (+)RGD
Celera1636,705,569 - 36,744,619 (+)RGD
cM Map16 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_084009   ⟸   NM_029733
- UniProtKB: Q9D8D6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001371019   ⟸   NM_001384090
- UniProtKB: Q9D8D6 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSMUSP00000139876   ⟸   ENSMUST00000187742
RefSeq Acc Id: ENSMUSP00000140745   ⟸   ENSMUST00000187183
RefSeq Acc Id: ENSMUSP00000067712   ⟸   ENSMUST00000063539
Protein Domains
Cystatin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D8D6-F1-model_v2 AlphaFold Q9D8D6 1-97 view protein structure

Promoters
RGD ID:8686114
Promoter ID:EPDNEW_M21088
Type:single initiation site
Name:2010005H15Rik_2
Description:Mus musculus RIKEN cDNA 2010005H15 gene , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M21089  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381636,221,470 - 36,221,530EPDNEW
RGD ID:8686116
Promoter ID:EPDNEW_M21089
Type:single initiation site
Name:2010005H15Rik_1
Description:Mus musculus RIKEN cDNA 2010005H15 gene , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M21088  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381636,252,999 - 36,253,059EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1924020 AgrOrtholog
Ensembl Genes ENSMUSG00000095620 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000063539 ENTREZGENE
  ENSMUST00000063539.7 UniProtKB/TrEMBL
  ENSMUST00000187183 ENTREZGENE
  ENSMUST00000187183.7 UniProtKB/TrEMBL
  ENSMUST00000187742.7 UniProtKB/TrEMBL
Gene3D-CATH 3.10.450.10 UniProtKB/TrEMBL
InterPro Cystatin_sf UniProtKB/TrEMBL
  Prot_inh_cystat UniProtKB/TrEMBL
  Prot_inh_cystat_CS UniProtKB/TrEMBL
  Prot_inh_stefinA UniProtKB/TrEMBL
MGD MGI:1924020 ENTREZGENE
NCBI Gene 76770 ENTREZGENE
PANTHER 2010005H15RIK PROTEIN-RELATED UniProtKB/TrEMBL
  PTHR11414 UniProtKB/TrEMBL
Pfam Cystatin UniProtKB/TrEMBL
PhenoGen Csta2 PhenoGen
PRINTS STEFINA UniProtKB/TrEMBL
PROSITE CYSTATIN UniProtKB/TrEMBL
SMART SM00043 UniProtKB/TrEMBL
Superfamily-SCOP SSF54403 UniProtKB/TrEMBL
UniProt Q9D8D6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-02-05 Csta2  cystatin A family member 2  2010005H15Rik  RIKEN cDNA 2010005H15 gene  Symbol and/or name change 5135510 APPROVED