Cstl1 (cystatin-like 1) - Rat Genome Database

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Gene: Cstl1 (cystatin-like 1) Rattus norvegicus
Analyze
Symbol: Cstl1
Name: cystatin-like 1
RGD ID: 1307417
Description: Predicted to enable cysteine-type peptidase activity. Predicted to be involved in signaling receptor ligand precursor processing. Predicted to act upstream of or within G protein-coupled opioid receptor signaling pathway and transmission of nerve impulse. Orthologous to human CSTL1 (cystatin like 1); INTERACTS WITH bisphenol A; oxybenzone; 4,4'-sulfonyldiphenol (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC296220
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83156,652,967 - 156,658,049 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3156,653,052 - 156,658,049 (+)EnsemblGRCr8
mRatBN7.23136,199,914 - 136,204,912 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3136,199,914 - 136,204,912 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3140,151,893 - 140,156,896 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03148,736,040 - 148,741,043 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03146,425,527 - 146,430,524 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03143,084,557 - 143,089,554 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3143,084,563 - 143,089,631 (+)Ensemblrn6Rnor6.0
Rnor_5.03149,493,397 - 149,498,394 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43137,512,913 - 137,517,910 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3135,041,342 - 135,046,339 (+)NCBICelera
RGSC_v3.13137,418,975 - 137,423,440 (+)NCBI
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

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Cstl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83156,652,967 - 156,658,049 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3156,653,052 - 156,658,049 (+)EnsemblGRCr8
mRatBN7.23136,199,914 - 136,204,912 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3136,199,914 - 136,204,912 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3140,151,893 - 140,156,896 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03148,736,040 - 148,741,043 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03146,425,527 - 146,430,524 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03143,084,557 - 143,089,554 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3143,084,563 - 143,089,631 (+)Ensemblrn6Rnor6.0
Rnor_5.03149,493,397 - 149,498,394 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43137,512,913 - 137,517,910 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3135,041,342 - 135,046,339 (+)NCBICelera
RGSC_v3.13137,418,975 - 137,423,440 (+)NCBI
Cytogenetic Map3q41NCBI
CSTL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382023,439,670 - 23,461,209 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2023,426,104 - 23,444,930 (+)Ensemblhg38GRCh38
GRCh372023,420,307 - 23,441,846 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362023,368,322 - 23,373,567 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342023,368,321 - 23,373,567NCBI
Celera2023,493,702 - 23,498,947 (+)NCBICelera
Cytogenetic Map20p11.21NCBI
HuRef2023,381,984 - 23,387,229 (+)NCBIHuRef
CHM1_12023,420,318 - 23,425,563 (+)NCBICHM1_1
T2T-CHM13v2.02023,499,204 - 23,520,744 (+)NCBIT2T-CHM13v2.0
Cstl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392148,592,272 - 148,597,354 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2148,592,278 - 148,597,353 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm382148,750,361 - 148,755,434 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2148,750,358 - 148,755,433 (+)Ensemblmm10GRCm38
MGSCv372148,576,097 - 148,581,114 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv362148,441,802 - 148,446,819 (+)NCBIMGSCv36mm8
Celera2150,016,989 - 150,022,007 (+)NCBICelera
Cytogenetic Map2G3NCBI
cM Map273.53NCBI
Cstl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541530,437,469 - 30,443,692 (+)Ensembl
ChiLan1.0NW_00495541530,438,013 - 30,441,845 (+)NCBIChiLan1.0ChiLan1.0
CSTL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22124,305,948 - 24,315,468 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12024,302,803 - 24,308,783 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02023,374,982 - 23,380,933 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12023,725,896 - 23,731,152 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2023,725,896 - 23,731,152 (+)EnsemblpanPan2panpan1.1
CSTL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.124197,438 - 202,306 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl24197,472 - 202,316 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha24219,215 - 224,082 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.024589,819 - 594,687 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl24587,673 - 594,694 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.124192,125 - 196,992 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.024291,488 - 296,354 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.024575,363 - 580,231 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cstl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640148,700,076 - 148,710,628 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366202,122,265 - 2,129,300 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366202,123,130 - 2,129,284 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CSTL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1730,402,814 - 30,408,194 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11730,403,841 - 30,407,571 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21734,492,001 - 34,496,619 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CSTL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_0236660787,260,619 - 7,265,342 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cstl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474123,095,984 - 23,099,941 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474123,096,012 - 23,099,791 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Cstl1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v15128,286,605 - 128,291,747 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Cstl1
11 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:139
Count of miRNA genes:113
Interacting mature miRNAs:120
Transcripts:ENSRNOT00000006362
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3141555229186555229Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141555229186555229Rat
1582233Insul10Insulin level QTL 105.40.0015blood insulin amount (VT:0001560)serum insulin level times blood glucose level (CMO:0002040)3133259579178259579Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3141555229186555229Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3141555229186555229Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3151075912189428310Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)3129154923182114333Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3141555229186555229Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3141555229186555229Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)367641776167835660Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3133134628178134628Rat
1582213Insul6Insulin level QTL 63.70.0009blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3141508991166376254Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3152055202189428310Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)3112250810157250810Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3142898802187898802Rat
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)379649560177741895Rat
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)3145335553189428310Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)3117537367162537367Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3125116475170116475Rat
1582256Insul9Insulin level QTL 94.40.0016blood insulin amount (VT:0001560)absolute change in serum insulin level (CMO:0002038)3155759447189428310Rat
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)3139299381184299381Rat
5686842Rf59Renal function QTL 59urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)3122395989167395989Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3141508991177728348Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)3131036586176036586Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3137114333182114333Rat
1582248Insul7Insulin level QTL 73.90.0041blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)3131036586176036586Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)398651826167012663Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3151075912189428310Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3151075912189428310Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3141555229186555229Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3144575244189428310Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)3116188400161188400Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
6 2 6 62 27 24 10 8 10 6 52 26 50 8 47 14 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000006362   ⟹   ENSRNOP00000006362
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3156,653,052 - 156,658,049 (+)Ensembl
mRatBN7.2 Ensembl3136,199,914 - 136,204,912 (+)Ensembl
Rnor_6.0 Ensembl3143,084,563 - 143,089,631 (+)Ensembl
RefSeq Acc Id: NM_001106522   ⟹   NP_001099992
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83156,653,052 - 156,658,049 (+)NCBI
mRatBN7.23136,199,914 - 136,204,912 (+)NCBI
Rnor_6.03143,084,557 - 143,089,554 (+)NCBI
Rnor_5.03149,493,397 - 149,498,394 (+)NCBI
RGSC_v3.43137,512,913 - 137,517,910 (+)RGD
Celera3135,041,342 - 135,046,339 (+)RGD
Sequence:
RefSeq Acc Id: XM_063283358   ⟹   XP_063139428
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83156,652,967 - 156,658,006 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001099992 (Get FASTA)   NCBI Sequence Viewer  
  XP_063139428 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL95092 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000006362
  ENSRNOP00000006362.5
RefSeq Acc Id: NP_001099992   ⟸   NM_001106522
- Peptide Label: precursor
- UniProtKB: D3ZZA3 (UniProtKB/TrEMBL),   A6K7C7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000006362   ⟸   ENSRNOT00000006362
RefSeq Acc Id: XP_063139428   ⟸   XM_063283358
- Peptide Label: isoform X1
Protein Domains
Cystatin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZZA3-F1-model_v2 AlphaFold D3ZZA3 1-140 view protein structure

Transcriptome

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

Promoters
RGD ID:13692499
Promoter ID:EPDNEW_R3024
Type:single initiation site
Name:Cstl1_1
Description:cystatin-like 1
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_6.03143,084,567 - 143,084,627EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307417 AgrOrtholog
BioCyc Gene G2FUF-47495 BioCyc
Ensembl Genes ENSRNOG00000004779 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006362 ENTREZGENE
  ENSRNOT00000006362.8 UniProtKB/TrEMBL
Gene3D-CATH 3.10.450.10 UniProtKB/TrEMBL
InterPro CSTL1 UniProtKB/TrEMBL
  Cystatin_sf UniProtKB/TrEMBL
  Prot_inh_cystat UniProtKB/TrEMBL
KEGG Report rno:296220 UniProtKB/TrEMBL
NCBI Gene 296220 ENTREZGENE
PANTHER CYSTATIN-LIKE 1 UniProtKB/TrEMBL
  PTHR47887 UniProtKB/TrEMBL
Pfam Cystatin UniProtKB/TrEMBL
PhenoGen Cstl1 PhenoGen
RatGTEx ENSRNOG00000004779 RatGTEx
SMART SM00043 UniProtKB/TrEMBL
Superfamily-SCOP SSF54403 UniProtKB/TrEMBL
UniProt A6K7C7 ENTREZGENE, UniProtKB/TrEMBL
  D3ZZA3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Cstl1  cystatin-like 1   Cstl1_predicted  cystatin-like 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cstl1_predicted  cystatin-like 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED