Cryaa (crystallin, alpha A) - Rat Genome Database
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Gene: Cryaa (crystallin, alpha A) Rattus norvegicus
Analyze
Symbol: Cryaa
Name: crystallin, alpha A
RGD ID: 2413
Description: Exhibits identical protein binding activity. Involved in several processes, including lens development in camera-type eye; response to hydrogen peroxide; and response to lead ion. Localizes to cytoplasm. Used to study cataract. Biomarker of cataract; galactosemia; and ocular hypertension. Human ortholog(s) of this gene implicated in cataract 9 multiple types. Orthologous to several human genes including CRYAA2 (crystallin alpha A2); PARTICIPATES IN Endoplasmic Reticulum-associated degradation pathway; INTERACTS WITH (+)-alpha-tocopherol; (R)-lipoic acid; 5-azacytidine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Acry-1; alpha-crystallin A chain; Crya1; Crystallin alpha polypeptide A; Crystallin, alpha polypeptide A
RGD Orthologs
Human
Mouse
Chinchilla
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2209,783,605 - 9,787,351 (+)NCBI
Rnor_6.0 Ensembl2010,438,444 - 10,442,187 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02010,438,444 - 10,442,189 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02012,621,549 - 12,625,628 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2011,297,259 - 11,301,004 (+)NCBICelera
RH 3.4 Map20134.02RGD
Cytogenetic Map20p12NCBI
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
cytoplasm  (IDA,ISO)
cytosol  (ISO)
nucleoplasm  (ISO)
nucleus  (ISO,ISS)
protein-containing complex  (ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Cenedella RJ and Fleschner CR, Curr Eye Res. 1992 Aug;11(8):801-15.
2. Fujii N, etal., Amino Acids. 2004 Mar;26(2):147-52. Epub 2003 Dec 18.
3. GOA data from the GO Consortium
4. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
5. Mackay DS, etal., Eur J Hum Genet 2003 Oct;11(10):784-93.
6. MGD data from the GO Consortium
7. Mishra S, etal., FEBS Lett. 2012 Feb 17;586(4):330-6. doi: 10.1016/j.febslet.2012.01.019. Epub 2012 Jan 28.
8. Miyara N, etal., Jpn J Ophthalmol. 2008 Mar-Apr;52(2):84-90. Epub 2008 Apr 30.
9. Moormann RJ, etal., Nucleic Acids Res 1981 Oct 10;9(19):4813-22.
10. Mouse Genome Database (MGD)
11. NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. Neal R, etal., Toxicology. 2005 Aug 15;212(1):1-9.
13. Oguni M, etal., Cell Tissue Res. 1994 Apr;276(1):151-4.
14. OMIM Disease Annotation Pipeline
15. Pipeline to import KEGG annotations from KEGG into RGD
16. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
17. RGD automated import pipeline for gene-chemical interactions
18. Rumyantseva YV, etal., Biochemistry (Mosc). 2008 Nov;73(11):1176-82.
19. Santhoshkumar P and Sharma KK, J Biol Chem. 2001 Dec 14;276(50):47094-9. Epub 2001 Oct 11.
20. Srinivasan AN, etal., J Biol Chem 1992 Nov 15;267(32):23337-41.
21. Thampi P and Abraham EC, Biochemistry. 2003 Oct 14;42(40):11857-63.
22. Verschuure P, etal., J Mol Cell Cardiol. 2002 Feb;34(2):117-28.
23. Wang K, etal., Exp Eye Res. 1995 Jul;61(1):115-24.
24. Wen Y, etal., Invest Ophthalmol Vis Sci. 1991 Apr;32(5):1638-47.
Additional References at PubMed
PMID:699911   PMID:2294971   PMID:8812430   PMID:8875649   PMID:8943244   PMID:9023351   PMID:9467006   PMID:9813033   PMID:11687536   PMID:12235146   PMID:12477932   PMID:12546709  
PMID:12584250   PMID:12601044   PMID:14690441   PMID:14752512   PMID:16303126   PMID:16309625   PMID:16439475   PMID:16675842   PMID:16799046   PMID:17176090   PMID:17438522   PMID:17893660  
PMID:18056999   PMID:18158587   PMID:18191123   PMID:18407550   PMID:18551258   PMID:18587492   PMID:19464326   PMID:19558454   PMID:19651604   PMID:20682783   PMID:21311744   PMID:21677790  
PMID:22085609   PMID:23071119   PMID:23142719   PMID:23376485   PMID:23508955   PMID:25416956   PMID:26378715  


Genomics

Comparative Map Data
Cryaa
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2209,783,605 - 9,787,351 (+)NCBI
Rnor_6.0 Ensembl2010,438,444 - 10,442,187 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02010,438,444 - 10,442,189 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02012,621,549 - 12,625,628 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2011,297,259 - 11,301,004 (+)NCBICelera
RH 3.4 Map20134.02RGD
Cytogenetic Map20p12NCBI
CRYAA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2143,169,008 - 43,172,805 (+)EnsemblGRCh38hg38GRCh38
GRCh382143,169,008 - 43,172,810 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372144,589,118 - 44,592,920 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362143,462,210 - 43,465,982 (+)NCBINCBI36hg18NCBI36
Build 342143,462,209 - 43,465,982NCBI
Celera2129,741,819 - 29,745,592 (+)NCBI
Cytogenetic Map21q22.3NCBI
HuRef2130,007,222 - 30,011,008 (+)NCBIHuRef
CHM1_12144,149,981 - 44,153,753 (+)NCBICHM1_1
Cryaa
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391731,896,905 - 31,900,704 (+)NCBIGRCm39mm39
GRCm39 Ensembl1731,896,781 - 31,900,707 (+)Ensembl
GRCm381731,677,931 - 31,681,730 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1731,677,807 - 31,681,733 (+)EnsemblGRCm38mm10GRCm38
MGSCv371731,814,890 - 31,818,669 (+)NCBIGRCm37mm9NCBIm37
MGSCv361731,406,661 - 31,410,057 (+)NCBImm8
Celera1732,595,462 - 32,599,241 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1717.09NCBI
Cryaa
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495540738,880,088 - 38,892,946 (-)NCBIChiLan1.0ChiLan1.0
CRYAA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl3137,307,093 - 37,310,247 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.13137,307,070 - 37,310,262 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cryaa
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936500931,804 - 935,185 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CRYAA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.113206,293,877 - 206,297,050 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Cryaa
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474527,636,932 - 27,639,814 (-)NCBI

Position Markers
RH94619  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02010,442,033 - 10,442,129NCBIRnor6.0
Rnor_5.02012,625,472 - 12,625,568UniSTSRnor5.0
Celera2011,300,848 - 11,300,944UniSTS
RH 3.4 Map20134.02UniSTS
UniSTS:259595  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02010,438,587 - 10,440,172NCBIRnor6.0
Rnor_5.02012,622,026 - 12,623,611UniSTSRnor5.0
Celera2011,297,402 - 11,298,987UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124652101Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125653396Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20127357423Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20128375393Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20128375393Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20128375393Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20128375393Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20128375393Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20133300419Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20137550487Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20137550487Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20340211127968216Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20403911318872273Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20403911318872273Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RChigh CD8 T cell count to CD45RClow CD8 T cell count ratio (CMO:0001990)20485546810800530Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20485547515050565Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20587544818739210Rat
1581577Pur15Proteinuria QTL 154.380.0002total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20865434118872273Rat
4889870Pur30Proteinuria QTL 30190.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20865434130991290Rat
631265Iresp1Immunoglobin response QTL18.3blood anti-double stranded DNA antibody amount (VT:0004762)serum anti-DNA antibody level (CMO:0001533)20965564214411641Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:130
Count of miRNA genes:59
Interacting mature miRNAs:64
Transcripts:ENSRNOT00000071248, ENSRNOT00000075545
Prediction methods: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.


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 musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 6
Low 2 7 12 7 5
Below cutoff 12 4 1 4 1 31 19 14 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000071248   ⟹   ENSRNOP00000067332
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2010,438,444 - 10,442,187 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000075545   ⟹   ENSRNOP00000065714
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2010,438,489 - 10,442,181 (+)Ensembl
RefSeq Acc Id: NM_001289737   ⟹   NP_001276666
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2209,783,652 - 9,787,343 (+)NCBI
Rnor_6.02010,438,489 - 10,442,181 (+)NCBI
Celera2011,297,304 - 11,300,996 (+)NCBI
Sequence:
RefSeq Acc Id: NM_012534   ⟹   NP_036666
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2209,783,605 - 9,787,351 (+)NCBI
Rnor_6.02010,438,444 - 10,442,189 (+)NCBI
Rnor_5.02012,621,549 - 12,625,628 (+)NCBI
Celera2011,297,259 - 11,301,004 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_036666   ⟸   NM_012534
- Peptide Label: isoform 1
- UniProtKB: P24623 (UniProtKB/Swiss-Prot),   A0JN13 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001276666   ⟸   NM_001289737
- Peptide Label: isoform 2
- UniProtKB: P24623 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000065714   ⟸   ENSRNOT00000075545
RefSeq Acc Id: ENSRNOP00000067332   ⟸   ENSRNOT00000071248
Protein Domains
sHSP

Transcriptome

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

Promoters
RGD ID:13701480
Promoter ID:EPDNEW_R12003
Type:single initiation site
Name:Cryaa_1
Description:crystallin, alpha A
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_6.02010,438,435 - 10,438,495EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2413 AgrOrtholog
Ensembl Genes ENSRNOG00000047175 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000065714 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000067332 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000071248 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000075545 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.790 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8364912 IMAGE-MGC_LOAD
InterPro A-crystallin/Hsp20_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Alpha-crystallin/HSP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Alpha-crystallin_A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Alpha-crystallin_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HSP20-like_chaperone UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24273 UniProtKB/Swiss-Prot
MGC_CLONE MGC:156594 IMAGE-MGC_LOAD
NCBI Gene 24273 ENTREZGENE
PANTHER PTHR45640 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR45640:SF14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Crystallin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HSP20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cryaa PhenoGen
PIRSF Sm_HSP_B1 UniProtKB/TrEMBL
PRINTS ACRYSTALLIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE SHSP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49764 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0JN13 ENTREZGENE, UniProtKB/TrEMBL
  CRYAA_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary P02490 UniProtKB/Swiss-Prot
  P02496 UniProtKB/Swiss-Prot
  P82532 UniProtKB/Swiss-Prot
  Q61444 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-11-06 Cryaa  crystallin, alpha A    Crystallin, alpha polypeptide A  Name updated 625702 APPROVED
2002-06-10 Cryaa  Crystallin, alpha polypeptide A      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease mutation of the human homolog is associated with an autosomal dominant form of nuclear cataract 727765
gene_expression expressed in brain, liver, lung, spleen, skin, and small intestine 727765
gene_product may be a member of the small-heat-shock protein (sHSP) family of molecular chaperones 728218