Crygf (crystallin, gamma F) - Rat Genome Database

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Gene: Crygf (crystallin, gamma F) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Crygf
Name: crystallin, gamma F
RGD ID: 1586353
Description: Predicted to be a structural constituent of eye lens. Involved in lens development in camera-type eye. Human ortholog(s) of this gene implicated in cataract 4 multiple types and cataract 7. Orthologous to human CRYGD (crystallin gamma D); INTERACTS WITH ammonium chloride; bisphenol A; Cuprizon.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Cryg6; Crygf_mapped; crystallin, gamma F (mapped); Crystallin, gamma polypeptide 6; gamma-crystallin 4-1; gamma-crystallin F; gamma-F-crystallin; Len; LOC689947; similar to Gamma crystallin F (Gamma crystallin 4-1)
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8974,897,984 - 74,900,148 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl974,897,673 - 74,900,148 (+)EnsemblGRCr8
mRatBN7.2967,448,265 - 67,450,429 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl967,447,954 - 67,450,429 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx975,938,925 - 75,941,091 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0981,065,641 - 81,067,805 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0979,441,918 - 79,444,084 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0972,933,304 - 72,935,468 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl972,933,304 - 72,935,468 (+)Ensemblrn6Rnor6.0
Rnor_5.0974,363,448 - 74,365,612 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4964,679,611 - 64,681,775 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera964,941,221 - 64,943,385 (+)NCBICelera
Cytogenetic Map9q32NCBI
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. 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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. Differential synthesis of crystallins in the developing rat eye lens. Voorter CE, etal., Exp Eye Res. 1990 Apr;50(4):429-37.
Additional References at PubMed
PMID:2777080   PMID:3783678   PMID:11139622   PMID:26385181  


Genomics

Variants

.
Variants in Crygf
15 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:22
Count of miRNA genes:22
Interacting mature miRNAs:22
Transcripts:ENSRNOT00000041632
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)9671488884474983Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)956047863101047863Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)94002992585029925Rat
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)963376862108376862Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94445825699506504Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)965657365108376720Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)94445825685262605Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92956766483835942Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)94172029586720295Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)964220169109220169Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)944458256121768150Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)964220169109220169Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)964220169109220169Rat
1581517Bp284Blood pressure QTL 284arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)93922018684220186Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)968875497121768150Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)948718864108376862Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)94002992585029925Rat
1598849Memor17Memory QTL 172.2exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)95746049778547958Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)95450650499506504Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)964220169109220169Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)93496059079960590Rat

Markers in Region
D9Mgh4  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8974,901,065 - 74,901,204 (+)Marker Load Pipeline
mRatBN7.2967,451,346 - 67,451,485 (+)MAPPERmRatBN7.2
Rnor_6.0972,936,386 - 72,936,524NCBIRnor6.0
Rnor_5.0974,362,392 - 74,362,530UniSTSRnor5.0
RGSC_v3.4964,682,692 - 64,682,831RGDRGSC3.4
RGSC_v3.4964,682,693 - 64,682,831UniSTSRGSC3.4
Celera964,944,303 - 64,944,441UniSTS
RGSC_v3.1964,829,674 - 64,829,813RGD
RH 3.4 Map9588.2RGD
RH 3.4 Map9588.2UniSTS
RH 2.0 Map9632.5RGD
Cytogenetic Map9q32UniSTS
UniSTS:463202  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2967,448,568 - 67,450,216 (+)MAPPERmRatBN7.2
Rnor_6.0972,933,608 - 72,935,255NCBIRnor6.0
Rnor_5.0974,363,661 - 74,365,308UniSTSRnor5.0
RGSC_v3.4964,679,915 - 64,681,562UniSTSRGSC3.4
Celera964,941,525 - 64,943,172UniSTS
Cytogenetic Map9q32UniSTS
Cryge  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2967,448,641 - 67,450,187 (+)MAPPERmRatBN7.2
Rnor_6.0972,933,681 - 72,935,226NCBIRnor6.0
Rnor_5.0974,363,690 - 74,365,235UniSTSRnor5.0
RGSC_v3.4964,679,988 - 64,681,533UniSTSRGSC3.4
Celera964,941,598 - 64,943,143UniSTS
Cytogenetic Map9q32UniSTS


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
2 10 26 1 1 1 1 1 31 15 26 14 18

Sequence


Ensembl Acc Id: ENSRNOT00000041632   ⟹   ENSRNOP00000045818
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl974,897,984 - 74,900,148 (+)Ensembl
mRatBN7.2 Ensembl967,448,265 - 67,450,429 (+)Ensembl
Rnor_6.0 Ensembl972,933,304 - 72,935,468 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000114566   ⟹   ENSRNOP00000091547
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl974,897,673 - 74,900,148 (+)Ensembl
mRatBN7.2 Ensembl967,447,954 - 67,450,429 (+)Ensembl
RefSeq Acc Id: NM_001109557   ⟹   NP_001103027
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8974,897,984 - 74,900,148 (+)NCBI
mRatBN7.2967,448,265 - 67,450,429 (+)NCBI
Rnor_6.0972,933,304 - 72,935,468 (+)NCBI
Rnor_5.0974,363,448 - 74,365,612 (-)NCBI
RGSC_v3.4964,679,611 - 64,681,775 (+)RGD
Celera964,941,221 - 64,943,385 (+)RGD
Sequence:
RefSeq Acc Id: XM_039084219   ⟹   XP_038940147
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8974,898,079 - 74,900,148 (+)NCBI
mRatBN7.2967,448,360 - 67,450,365 (+)NCBI
RefSeq Acc Id: XM_039084220   ⟹   XP_038940148
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8974,898,079 - 74,900,011 (+)NCBI
mRatBN7.2967,448,360 - 67,450,292 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001103027 (Get FASTA)   NCBI Sequence Viewer  
  XP_038940147 (Get FASTA)   NCBI Sequence Viewer  
  XP_038940148 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA40988 (Get FASTA)   NCBI Sequence Viewer  
  EDL75307 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000045818
GenBank Protein P10068 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001103027   ⟸   NM_001109557
- UniProtKB: P10068 (UniProtKB/Swiss-Prot),   G3V9F6 (UniProtKB/TrEMBL),   A6KFC0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000045818   ⟸   ENSRNOT00000041632
RefSeq Acc Id: XP_038940147   ⟸   XM_039084219
- Peptide Label: isoform X1
- UniProtKB: P10068 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038940148   ⟸   XM_039084220
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000091547   ⟸   ENSRNOT00000114566
Protein Domains
Beta/gamma crystallin 'Greek key'

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P10068-F1-model_v2 AlphaFold P10068 1-174 view protein structure

Transcriptome

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

Promoters
RGD ID:13696722
Promoter ID:EPDNEW_R7246
Type:multiple initiation site
Name:Crygf_1
Description:crystallin, gamma F
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_6.0972,933,349 - 72,933,409EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1586353 AgrOrtholog
BioCyc Gene G2FUF-27295 BioCyc
Ensembl Genes ENSRNOG00000032869 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000041632 ENTREZGENE
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
NCBI Gene 689947 ENTREZGENE
PANTHER BETA/GAMMA CRYSTALLIN UniProtKB/Swiss-Prot
  GAMMA-CRYSTALLIN E-RELATED UniProtKB/Swiss-Prot
Pfam Crystall UniProtKB/Swiss-Prot
PhenoGen Crygf PhenoGen
PRINTS BGCRYSTALLIN UniProtKB/Swiss-Prot
PROSITE CRYSTALLIN_BETA_GAMMA UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000032869 RatGTEx
SMART XTALbg UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49695 UniProtKB/Swiss-Prot
UniProt A0A8I6AGB7_RAT UniProtKB/TrEMBL
  A6KFC0 ENTREZGENE, UniProtKB/TrEMBL
  CRGF_RAT UniProtKB/Swiss-Prot
  G3V9F6 ENTREZGENE, UniProtKB/TrEMBL
  P10068 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-18 Crygf  crystallin, gamma F  LOC689947  similar to Gamma crystallin F (Gamma crystallin 4-1)  Symbol and Name updated 1299863 APPROVED
2008-09-18 LOC689947  similar to Gamma crystallin F (Gamma crystallin 4-1)  Crygf  crystallin, gamma F  Data merged from RGD:1624214 737654 APPROVED
2008-01-09 LOC689947  similar to Gamma crystallin F (Gamma crystallin 4-1)  LOC678809  similar to Gamma crystallin F (Gamma crystallin 4-1)  Data merged from RGD:1595606 1643240 APPROVED
2006-11-20 LOC678809  similar to Gamma crystallin F (Gamma crystallin 4-1)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC689947  similar to Gamma crystallin F (Gamma crystallin 4-1)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Crygf_mapped  crystallin, gamma F (mapped)  Crygf  crystallin, gamma F  Symbol and Name updated 1556543 APPROVED
2002-11-06 Crygf  crystallin, gamma F    Crystallin, gamma polypeptide 6  Name updated 625702 APPROVED
2002-06-10 Crygf  Crystallin, gamma polypeptide 6      Symbol and Name status set to approved 70586 APPROVED