Cst13 (cystatin 13) - Rat Genome Database

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Gene: Cst13 (cystatin 13) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Cst13
Name: cystatin 13
RGD ID: 1564873
Description: Predicted to enable cysteine-type endopeptidase inhibitor activity. Predicted to be involved in response to axon injury and salivary gland development; INTERACTS WITH 3-chloropropane-1,2-diol; bisphenol A; vinclozolin.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cystatin-13; LOC502679; RGD1564873; similar to cystatin T
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83156,720,191 - 156,729,986 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3156,724,481 - 156,729,990 (+)EnsemblGRCr8
mRatBN7.23136,267,070 - 136,276,860 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3136,267,095 - 136,276,847 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3140,218,991 - 140,228,762 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03148,803,141 - 148,812,912 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03146,492,725 - 146,502,477 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03143,151,398 - 143,161,491 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3143,151,739 - 143,161,491 (+)Ensemblrn6Rnor6.0
Rnor_5.03149,548,834 - 149,570,330 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43137,580,095 - 137,589,847 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3135,108,492 - 135,118,268 (+)NCBICelera
Cytogenetic Map3q41NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References

Genomics

Variants

.
Variants in Cst13
71 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:37
Count of miRNA genes:34
Interacting mature miRNAs:35
Transcripts:ENSRNOT00000006850
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3121056165145956249Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)391797474136797474Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)397084464142084464Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat


Expression

RNA-SEQ Expression

appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
3 1 8 10 11 3 6 3 14 7 8 1 35 8

Sequence


Ensembl Acc Id: ENSRNOT00000006850   ⟹   ENSRNOP00000006850
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3156,724,481 - 156,729,990 (+)Ensembl
mRatBN7.2 Ensembl3136,267,095 - 136,276,847 (+)Ensembl
Rnor_6.0 Ensembl3143,151,739 - 143,161,491 (+)Ensembl
RefSeq Acc Id: NM_001109343   ⟹   NP_001102813
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83156,720,234 - 156,729,986 (+)NCBI
mRatBN7.23136,267,095 - 136,276,847 (+)NCBI
Rnor_6.03143,151,739 - 143,161,491 (+)NCBI
Rnor_5.03149,548,834 - 149,570,330 (+)NCBI
RGSC_v3.43137,580,095 - 137,589,847 (+)RGD
Celera3135,108,492 - 135,118,268 (+)RGD
Sequence:
RefSeq Acc Id: XM_006235162   ⟹   XP_006235224
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83156,720,191 - 156,729,984 (+)NCBI
mRatBN7.23136,267,070 - 136,276,860 (+)NCBI
Rnor_6.03143,151,398 - 143,161,483 (+)NCBI
Rnor_5.03149,548,834 - 149,570,330 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001102813 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235224 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL95083 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000006850
  ENSRNOP00000006850.2
RefSeq Acc Id: NP_001102813   ⟸   NM_001109343
- Peptide Label: precursor
- UniProtKB: D3ZNB1 (UniProtKB/TrEMBL),   A6K7D6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235224   ⟸   XM_006235162
- Peptide Label: isoform X1
- UniProtKB: D3ZNB1 (UniProtKB/TrEMBL),   A6K7D6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000006850   ⟸   ENSRNOT00000006850
Protein Domains
Cystatin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZNB1-F1-model_v2 AlphaFold D3ZNB1 1-141 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13692502
Promoter ID:EPDNEW_R3027
Type:multiple initiation site
Name:Cst13_1
Description:cystatin 13
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03143,151,741 - 143,151,801EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564873 AgrOrtholog
BioCyc Gene G2FUF-47487 BioCyc
Ensembl Genes ENSRNOG00000005103 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006850 ENTREZGENE
  ENSRNOT00000006850.4 UniProtKB/TrEMBL
Gene3D-CATH 3.10.450.10 UniProtKB/TrEMBL
InterPro Cystatin_sf UniProtKB/TrEMBL
  Prot_inh_cystat UniProtKB/TrEMBL
  Sperm_Mat_Cystatin UniProtKB/TrEMBL
KEGG Report rno:502679 UniProtKB/TrEMBL
NCBI Gene 502679 ENTREZGENE
PANTHER CYSTATIN-13 UniProtKB/TrEMBL
  CYSTATIN-8-RELATED UniProtKB/TrEMBL
Pfam Cystatin UniProtKB/TrEMBL
PhenoGen Cst13 PhenoGen
RatGTEx ENSRNOG00000005103 RatGTEx
SMART SM00043 UniProtKB/TrEMBL
Superfamily-SCOP SSF54403 UniProtKB/TrEMBL
UniProt A6K7D6 ENTREZGENE, UniProtKB/TrEMBL
  D3ZNB1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Cst13  cystatin 13  RGD1564873_predicted  similar to cystatin T (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1564873_predicted  similar to cystatin T (predicted)  LOC502679  similar to cystatin T  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC502679  similar to cystatin T      Symbol and Name status set to provisional 70820 PROVISIONAL