Crisp3 (cysteine-rich secretory protein 3) - Rat Genome Database

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Gene: Crisp3 (cysteine-rich secretory protein 3) Rattus norvegicus
Analyze
Symbol: Crisp3
Name: cysteine-rich secretory protein 3
RGD ID: 619846
Description: Predicted to be located in extracellular region and specific granule. Predicted to be active in extracellular space. Orthologous to human CRISP3 (cysteine rich secretory protein 3); INTERACTS WITH bisphenol A; 17beta-estradiol (ortholog); 17beta-hydroxy-5alpha-androstan-3-one (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 32 kDa epididymal protein; acidic epididymal glycoprotein D/E; Aeg; Crisp-1; Crisp1; cysteine-rich secretory protein 1; epididymal glycoprotein; protein D; protein E; protein IV; SCP; sialoprotein; sperm-coating glycoprotein
RGD Orthologs
Human
Mouse
Bonobo
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8927,928,591 - 27,969,205 (+)NCBIGRCr8
mRatBN7.2920,432,051 - 20,472,663 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,450,908 - 20,472,658 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx928,962,775 - 29,003,213 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0934,065,231 - 34,105,840 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0932,376,050 - 32,416,659 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0924,047,405 - 24,088,066 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl924,066,303 - 24,088,064 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0922,907,619 - 22,948,639 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4916,654,563 - 16,698,037 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1916,651,884 - 16,695,359 (+)NCBI
Celera918,080,027 - 18,115,374 (+)NCBICelera
Cytogenetic Map9q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Molecular cloning of the cDNA for androgen-dependent sperm-coating glycoproteins secreted by the rat epididymis. Brooks DE, etal., Eur J Biochem 1986 Nov 17;161(1):13-8.
2. Molecular cloning of complementary deoxyribonucleic acid for an androgen-regulated epididymal protein: sequence homology with metalloproteins. Charest NJ, etal., Mol Endocrinol 1988 Oct;2(10):999-1004.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8601434   PMID:12009203   PMID:12223513   PMID:12433721   PMID:14711787   PMID:16502470   PMID:16872593   PMID:17482178   PMID:17671267   PMID:18703418   PMID:21593480   PMID:23376485  
PMID:30520133  


Genomics

Comparative Map Data
Crisp3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8927,928,591 - 27,969,205 (+)NCBIGRCr8
mRatBN7.2920,432,051 - 20,472,663 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,450,908 - 20,472,658 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx928,962,775 - 29,003,213 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0934,065,231 - 34,105,840 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0932,376,050 - 32,416,659 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0924,047,405 - 24,088,066 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl924,066,303 - 24,088,064 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0922,907,619 - 22,948,639 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4916,654,563 - 16,698,037 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1916,651,884 - 16,695,359 (+)NCBI
Celera918,080,027 - 18,115,374 (+)NCBICelera
Cytogenetic Map9q13NCBI
CRISP3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38649,727,376 - 49,744,388 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl649,727,376 - 49,744,437 (-)EnsemblGRCh38hg38GRCh38
GRCh37649,695,089 - 49,712,101 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36649,803,048 - 49,820,015 (-)NCBINCBI36Build 36hg18NCBI36
Build 34649,803,054 - 49,820,015NCBI
Celera651,251,171 - 51,268,255 (-)NCBICelera
Cytogenetic Map6p12.3NCBI
HuRef649,425,404 - 49,442,485 (-)NCBIHuRef
CHM1_1649,698,007 - 49,715,084 (-)NCBICHM1_1
T2T-CHM13v2.0649,569,352 - 49,586,363 (-)NCBIT2T-CHM13v2.0
Crisp3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391740,532,668 - 40,553,179 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1740,532,668 - 40,553,179 (-)EnsemblGRCm39 Ensembl
GRCm381740,221,777 - 40,242,288 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1740,221,777 - 40,242,288 (-)EnsemblGRCm38mm10GRCm38
MGSCv371740,358,726 - 40,379,207 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361739,685,254 - 39,705,741 (-)NCBIMGSCv36mm8
Celera1743,628,430 - 43,648,913 (-)NCBICelera
Cytogenetic Map17B2NCBI
cM Map1719.45NCBI
CRISP3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2564,211,609 - 64,228,607 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1660,077,260 - 60,094,258 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0649,297,914 - 49,314,978 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1650,558,388 - 50,575,431 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl650,559,742 - 50,568,518 (-)Ensemblpanpan1.1panPan2
CRISP3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl743,777,061 - 43,804,549 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1743,777,035 - 43,804,624 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2750,169,210 - 50,196,748 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103221388
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11722,658,296 - 22,676,996 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1722,659,652 - 22,677,137 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604449,705,747 - 49,713,767 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Crisp3
186 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:70
Count of miRNA genes:59
Interacting mature miRNAs:65
Transcripts:ENSRNOT00000018163
Prediction methods:Miranda, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat
724543Cm20Cardiac mass QTL 203.9heart mass (VT:0007028)calculated heart weight (CMO:0000073)91696139840594091Rat
631680Cm11Cardiac mass QTL 113.10.00089heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)92043051965430519Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system appendage
High
Medium 2
Low 1 1 2 8 7 1
Below cutoff 1 9 3 6 3 2 2 15 3 2

Sequence


RefSeq Acc Id: ENSRNOT00000018163   ⟹   ENSRNOP00000018162
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl920,450,908 - 20,472,658 (+)Ensembl
Rnor_6.0 Ensembl924,066,303 - 24,088,064 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000112970   ⟹   ENSRNOP00000080951
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl920,459,128 - 20,472,658 (+)Ensembl
RefSeq Acc Id: NM_022859   ⟹   NP_074050
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8927,928,591 - 27,969,203 (+)NCBI
mRatBN7.2920,432,051 - 20,472,663 (+)NCBI
Rnor_6.0924,047,454 - 24,088,064 (+)NCBI
Rnor_5.0922,907,619 - 22,948,639 (+)NCBI
RGSC_v3.4916,654,563 - 16,698,037 (+)RGD
Celera918,080,027 - 18,115,374 (+)RGD
Sequence:
RefSeq Acc Id: XM_063267694   ⟹   XP_063123764
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8927,947,413 - 27,969,205 (+)NCBI
RefSeq Acc Id: NP_074050   ⟸   NM_022859
- Peptide Label: precursor
- UniProtKB: P12020 (UniProtKB/Swiss-Prot),   A0A8I6G5B9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000018162   ⟸   ENSRNOT00000018163
RefSeq Acc Id: ENSRNOP00000080951   ⟸   ENSRNOT00000112970
RefSeq Acc Id: XP_063123764   ⟸   XM_063267694
- Peptide Label: isoform X1
Protein Domains
SCP   ShKT

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P12020-F1-model_v2 AlphaFold P12020 1-246 view protein structure

Transcriptome

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

Promoters
RGD ID:13696568
Promoter ID:EPDNEW_R7092
Type:single initiation site
Name:Crisp3_1
Description:cysteine-rich secretory protein 3
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_6.0924,066,292 - 24,066,352EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619846 AgrOrtholog
BioCyc Gene G2FUF-28074 BioCyc
Ensembl Genes ENSRNOG00000013496 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055019595 UniProtKB/Swiss-Prot
  ENSRNOG00060022553 UniProtKB/Swiss-Prot
  ENSRNOG00065018948 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000018163 ENTREZGENE
  ENSRNOT00000018163.6 UniProtKB/Swiss-Prot
  ENSRNOT00000112970.1 UniProtKB/TrEMBL
  ENSRNOT00055033470 UniProtKB/Swiss-Prot
  ENSRNOT00060039193 UniProtKB/Swiss-Prot
  ENSRNOT00065031875 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.10.740 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.33.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Allrgn_V5/Tpx1_CS UniProtKB/Swiss-Prot
  CAP_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CAP_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Crisp-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CRISP-related UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cysteine_rich_secretory UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SCP_CRISP UniProtKB/Swiss-Prot
  ShKT_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64827 UniProtKB/Swiss-Prot
NCBI Gene 64827 ENTREZGENE
PANTHER CYSTEINE-RICH SECRETORY PROTEIN 1-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10334 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Crisp UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Crisp3 PhenoGen
PRINTS V5TPXLIKE UniProtKB/Swiss-Prot
PROSITE CRISP_1 UniProtKB/Swiss-Prot
  CRISP_2 UniProtKB/Swiss-Prot
  SHKT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013496 RatGTEx
  ENSRNOG00055019595 RatGTEx
  ENSRNOG00060022553 RatGTEx
  ENSRNOG00065018948 RatGTEx
SMART SCP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Crisp domain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF55797 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6G5B9 ENTREZGENE, UniProtKB/TrEMBL
  CRIS1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-15 Crisp3  cysteine-rich secretory protein 3  Crisp1  cysteine-rich secretory protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Crisp1  cysteine-rich secretory protein 1  Aeg  epididymal glycoprotein  Symbol and Name updated 1299863 APPROVED
2002-08-07 Aeg  epididymal glycoprotein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression secreted by the epididymis 632253
gene_homology has similarity to yeast carboxypeptidase Y 632252