Crygs (crystallin, gamma S) - Rat Genome Database

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Gene: Crygs (crystallin, gamma S) Rattus norvegicus
Analyze
Symbol: Crygs
Name: crystallin, gamma S
RGD ID: 1587483
Description: Predicted to be a structural constituent of eye lens. Predicted to be involved in lens development in camera-type eye and visual perception. Predicted to act upstream of or within morphogenesis of an epithelium. Human ortholog(s) of this gene implicated in cataract 20 multiple types. Orthologous to human CRYGS (crystallin gamma S); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; trichloroethene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: beta-crystallin S; gamma-crystallin S; gamma-S-crystallin; LOC689897; similar to Beta crystallin S (Gamma crystallin S)
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
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81191,711,755 - 91,716,858 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1191,711,755 - 91,716,858 (+)EnsemblGRCr8
mRatBN7.21178,207,170 - 78,212,273 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1178,207,170 - 78,212,273 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1186,957,629 - 86,962,761 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01179,611,305 - 79,616,437 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01178,671,940 - 78,677,072 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01181,796,891 - 81,802,172 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1181,796,891 - 81,802,172 (+)Ensemblrn6Rnor6.0
Rnor_5.01184,884,805 - 84,889,998 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41180,417,632 - 80,437,802 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1177,076,320 - 77,081,919 (+)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse:




Disease 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. 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.
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:6877261   PMID:8034315   PMID:12079281  


Genomics

Comparative Map Data
Crygs
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81191,711,755 - 91,716,858 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1191,711,755 - 91,716,858 (+)EnsemblGRCr8
mRatBN7.21178,207,170 - 78,212,273 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1178,207,170 - 78,212,273 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1186,957,629 - 86,962,761 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01179,611,305 - 79,616,437 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01178,671,940 - 78,677,072 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01181,796,891 - 81,802,172 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1181,796,891 - 81,802,172 (+)Ensemblrn6Rnor6.0
Rnor_5.01184,884,805 - 84,889,998 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41180,417,632 - 80,437,802 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1177,076,320 - 77,081,919 (+)NCBICelera
Cytogenetic Map11q23NCBI
CRYGS
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383186,538,443 - 186,544,380 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3186,538,441 - 186,546,702 (-)Ensemblhg38GRCh38
GRCh373186,256,232 - 186,262,169 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363187,738,926 - 187,744,861 (-)NCBIBuild 36Build 36hg18NCBI36
Build 343187,738,933 - 187,744,869NCBI
Celera3184,692,609 - 184,698,544 (-)NCBICelera
Cytogenetic Map3q27.3NCBI
HuRef3183,665,250 - 183,671,185 (-)NCBIHuRef
CHM1_13186,220,170 - 186,226,105 (-)NCBICHM1_1
T2T-CHM13v2.03189,354,165 - 189,360,102 (-)NCBIT2T-CHM13v2.0
Crygs
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391622,623,953 - 22,630,160 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1622,623,953 - 22,630,327 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381622,805,203 - 22,811,410 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1622,805,203 - 22,811,577 (-)Ensemblmm10GRCm38
MGSCv371622,805,276 - 22,811,483 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361622,720,538 - 22,726,740 (-)NCBIMGSCv36mm8
Celera1623,365,528 - 23,371,735 (-)NCBICelera
Cytogenetic Map16B1NCBI
cM Map1613.66NCBI
Crygs
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542021,137,964 - 21,144,206 (+)Ensembl
ChiLan1.0NW_00495542021,137,964 - 21,144,206 (+)NCBIChiLan1.0ChiLan1.0
CRYGS
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22184,411,174 - 184,417,086 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13184,415,727 - 184,422,106 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03183,569,637 - 183,576,722 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13192,037,607 - 192,044,687 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3192,037,607 - 192,043,486 (-)EnsemblpanPan2panpan1.1
CRYGS
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13419,157,116 - 19,163,349 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3419,157,109 - 19,163,349 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3423,242,423 - 23,248,655 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03419,067,847 - 19,074,084 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3419,067,840 - 19,074,084 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13419,094,067 - 19,100,300 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03419,100,019 - 19,106,251 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03419,328,655 - 19,334,889 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Crygs
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602117,312,680 - 117,318,750 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365783,404,673 - 3,410,760 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365783,404,552 - 3,410,604 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CRYGS
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13124,356,509 - 124,358,663 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.113124,356,702 - 124,364,673 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213133,748,214 - 133,755,390 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CRYGS
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1152,887,133 - 2,889,566 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606311,630,446 - 11,637,858 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Crygs
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473070,217,668 - 70,223,166 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473070,216,813 - 70,223,412 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Crygs
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v147,490,663 - 7,495,807 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:88
Count of miRNA genes:78
Interacting mature miRNAs:85
Transcripts:ENSRNOT00000058402
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
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)117330848796070872Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)115892833699753367Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)117961851999753367Rat
10450831Scl80Serum cholesterol level QTL 804.70.01blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)119046178196556255Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)117385089499753367Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)115893182292356038Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)115441539196071021Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)118295102896351019Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)115775483796071021Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112019354996351019Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)116796218499753367Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)117330831599753367Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)116859932196497754Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)116985594399753367Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)115107102196071021Rat

Markers in Region
AI408238  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21178,205,370 - 78,205,464 (+)MAPPERmRatBN7.2
Rnor_6.01181,795,092 - 81,795,185NCBIRnor6.0
Rnor_5.01184,883,006 - 84,883,099UniSTSRnor5.0
RGSC_v3.41180,415,832 - 80,415,925UniSTSRGSC3.4
Celera1177,074,521 - 77,074,614UniSTS
RH 3.4 Map11654.1UniSTS
Cytogenetic Map11q23UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
13 8 44 119 91 90 59 70 59 6 292 139 6 96 75 60 31 6 6

Sequence


Ensembl Acc Id: ENSRNOT00000058402   ⟹   ENSRNOP00000055204
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1191,711,755 - 91,716,858 (+)Ensembl
mRatBN7.2 Ensembl1178,207,170 - 78,212,273 (+)Ensembl
Rnor_6.0 Ensembl1181,796,891 - 81,802,172 (+)Ensembl
RefSeq Acc Id: NM_001109553   ⟹   NP_001103023
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81191,711,755 - 91,716,858 (+)NCBI
mRatBN7.21178,207,170 - 78,212,273 (+)NCBI
Rnor_6.01181,796,891 - 81,802,172 (+)NCBI
Rnor_5.01184,884,805 - 84,889,998 (+)NCBI
RGSC_v3.41180,417,632 - 80,437,802 (+)RGD
Celera1177,076,320 - 77,081,919 (+)RGD
Sequence:
RefSeq Acc Id: XM_063270770   ⟹   XP_063126840
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81191,715,564 - 91,716,852 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001103023 (Get FASTA)   NCBI Sequence Viewer  
  XP_063126840 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL78052 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000055204
  ENSRNOP00000055204.2
GenBank Protein P0C5E9 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001103023   ⟸   NM_001109553
- UniProtKB: P0C5E9 (UniProtKB/Swiss-Prot),   A6JS55 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000055204   ⟸   ENSRNOT00000058402
RefSeq Acc Id: XP_063126840   ⟸   XM_063270770
- Peptide Label: isoform X1
Protein Domains
Beta/gamma crystallin 'Greek key'

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P0C5E9-F1-model_v2 AlphaFold P0C5E9 1-178 view protein structure

Transcriptome

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

Promoters
RGD ID:13698253
Promoter ID:EPDNEW_R8778
Type:single initiation site
Name:Crygs_1
Description:crystallin, gamma S
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_6.01181,796,891 - 81,796,951EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1587483 AgrOrtholog
BioCyc Gene G2FUF-20826 BioCyc
Ensembl Genes ENSRNOG00000038355 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000058402 ENTREZGENE
  ENSRNOT00000058402.3 UniProtKB/Swiss-Prot
Gene3D-CATH Crystallins UniProtKB/Swiss-Prot
InterPro Beta/Gamma-Crystallin UniProtKB/Swiss-Prot
  Beta/gamma_crystallin UniProtKB/Swiss-Prot
  G_crystallin-like UniProtKB/Swiss-Prot
KEGG Report rno:689897 UniProtKB/Swiss-Prot
NCBI Gene 689897 ENTREZGENE
PANTHER BETA/GAMMA CRYSTALLIN UniProtKB/Swiss-Prot
  GAMMA-CRYSTALLIN S UniProtKB/Swiss-Prot
Pfam Crystall UniProtKB/Swiss-Prot
PhenoGen Crygs PhenoGen
PRINTS BGCRYSTALLIN UniProtKB/Swiss-Prot
PROSITE CRYSTALLIN_BETA_GAMMA UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000038355 RatGTEx
SMART XTALbg UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49695 UniProtKB/Swiss-Prot
UniProt A6JS55 ENTREZGENE, UniProtKB/TrEMBL
  CRYGS_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-07-08 Crygs  crystallin, gamma S   LOC681467  similar to Beta crystallin S (Gamma crystallin S)  Data merged from RGD:1595364 1643240 APPROVED
2008-04-30 Crygs  crystallin, gamma S   Crygs_predicted  crystallin, gamma S (predicted)  'predicted' is removed 2292626 APPROVED
2007-10-02 Crygs_predicted  crystallin, gamma S (predicted)  Crygs  crystallin, gamma S (predicted)  Name updated 1299863 PROVISIONAL
2007-10-02 Crygs  crystallin, gamma S (predicted)  LOC689897  similar to Beta crystallin S (Gamma crystallin S)  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 PROVISIONAL
2006-11-20 LOC681467  similar to Beta crystallin S (Gamma crystallin S)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC689897  similar to Beta crystallin S (Gamma crystallin S)      Symbol and Name status set to provisional 70820 PROVISIONAL