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).
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 Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2967,448,265 - 67,450,429 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl967,447,954 - 67,450,429 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx975,938,925 - 75,941,091 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0981,065,641 - 81,067,805 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0979,441,918 - 79,444,084 (+)NCBIRnor_WKY
Rnor_6.0972,933,304 - 72,935,468 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl972,933,304 - 72,935,468 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0974,363,448 - 74,365,612 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4964,679,611 - 64,681,775 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera964,941,221 - 64,943,385 (+)NCBICelera
Cytogenetic Map9q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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
17 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92207116986369743Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92375414483851531Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92526804479271759Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)92746863972468639Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)93253550577535505Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93253550577535505Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)93696235977814038Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
6903941Pur31Proteinuria QTL 310.036urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94019418885194188Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94019418885194188Rat
61352Bp34Blood pressure QTL 345arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94249534379271511Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94279151387976209Rat
11353951Bp394Blood pressure QTL 394arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94464992189649921Rat
12879506Pur33Proteinuria QTL 33urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
1598849Memor17Memory QTL 172.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)94996854671098346Rat
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)95584784177026453Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)95662771378595166Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)95662771378595166Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95662771378595166Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat

Markers in Region
D9Mgh4  
Rat AssemblyChrPosition (strand)SourceJBrowse
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_v3.4964,682,693 - 64,682,831UniSTSRGSC3.4
RGSC_v3.4964,682,692 - 64,682,831RGDRGSC3.4
RGSC_v3.1964,829,674 - 64,829,813RGD
Celera964,944,303 - 64,944,441UniSTS
RH 3.4 Map9588.2UniSTS
RH 3.4 Map9588.2RGD
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
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system integumental system musculoskeletal system nervous system renal system reproductive system appendage
High
Medium
Low 3
Below cutoff 6 1 2 15 10 11 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000041632   ⟹   ENSRNOP00000045818
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl967,448,265 - 67,450,429 (+)Ensembl
Rnor_6.0 Ensembl972,933,304 - 72,935,468 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000114566   ⟹   ENSRNOP00000091547
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
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
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2967,448,360 - 67,450,365 (+)NCBI
RefSeq Acc Id: XM_039084220   ⟹   XP_038940148
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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  
  P10068 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001103027   ⟸   NM_001109557
- UniProtKB: G3V9F6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000045818   ⟸   ENSRNOT00000041632
RefSeq Acc Id: XP_038940147   ⟸   XM_039084219
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038940148   ⟸   XM_039084220
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000091547   ⟸   ENSRNOT00000114566
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, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000045818 ENTREZGENE
  ENSRNOP00000045818.3 UniProtKB/TrEMBL
  ENSRNOP00000091547.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000041632 ENTREZGENE
  ENSRNOT00000041632.4 UniProtKB/TrEMBL
  ENSRNOT00000114566.1 UniProtKB/TrEMBL
InterPro Beta/gamma_crystallin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  G_crystallin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:689947 UniProtKB/TrEMBL
NCBI Gene 689947 ENTREZGENE
Pfam Crystall UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Crygf PhenoGen
PRINTS BGCRYSTALLIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CRYSTALLIN_BETA_GAMMA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART XTALbg UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49695 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6AGB7_RAT 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 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 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