Cryaa (crystallin, alpha A) - Rat Genome Database

Name: Cryaa
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Cryaa (crystallin, alpha A) Rattus norvegicus

Analyze

Symbol:

Cryaa

Name:

crystallin, alpha A

RGD ID:

2413

Description:

Enables identical protein binding activity. Involved in several processes, including multicellular organism aging; response to hydrogen peroxide; and response to lead ion. Located in 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 human CRYAA (crystallin alpha A); PARTICIPATES IN Endoplasmic Reticulum-associated degradation pathway; INTERACTS WITH (R)-lipoic acid; (R,R,R)-alpha-tocopherol; 5-azacytidine.

Type:

protein-coding (Ensembl: pseudogene)

RefSeq Status:

VALIDATED

Previously 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 ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	CRYAA (crystallin alpha A)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB
Mus musculus (house mouse):	Cryaa (crystallin, alpha A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Cryaa (crystallin alpha A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CRYAA (crystallin alpha A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Cryaa (crystallin alpha A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CRYAA (crystallin alpha A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Cryaa (crystallin alpha A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	CRYAA2 (crystallin alpha A2)	HGNC	HomoloGene, OMA, OrthoDB, Panther
Alliance orthologs ³
Mus musculus (house mouse):	Cryaa (crystallin, alpha A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	CRYAA (crystallin alpha A)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	cryaa (crystallin, alpha A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	hsp-12.1	Alliance	DIOPT (Ensembl Compara\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	hsp-12.2	Alliance	DIOPT (Ensembl Compara\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	hsp-12.3	Alliance	DIOPT (OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	hsp-12.6	Alliance	DIOPT (OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	hsp-16.1	Alliance	DIOPT (Ensembl Compara\|InParanoid\|PANTHER)
Caenorhabditis elegans (roundworm):	hsp-16.41	Alliance	DIOPT (Ensembl Compara\|InParanoid\|PANTHER)
Caenorhabditis elegans (roundworm):	hsp-16.48	Alliance	DIOPT (Ensembl Compara\|InParanoid\|PANTHER)
Drosophila melanogaster (fruit fly):	l(2)efl	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	F08H9.3	Alliance	DIOPT (Ensembl Compara\|InParanoid\|PANTHER)
Drosophila melanogaster (fruit fly):	Hsp22	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER)
Caenorhabditis elegans (roundworm):	F08H9.4	Alliance	DIOPT (Ensembl Compara\|InParanoid\|PANTHER)
Drosophila melanogaster (fruit fly):	Hsp23	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER)
Drosophila melanogaster (fruit fly):	Hsp26	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|PANTHER)
Caenorhabditis elegans (roundworm):	hsp-16.2	Alliance	DIOPT (Ensembl Compara\|InParanoid\|PANTHER)
Drosophila melanogaster (fruit fly):	Hsp67Ba	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER)
Caenorhabditis elegans (roundworm):	hsp-16.11	Alliance	DIOPT (Ensembl Compara\|InParanoid\|PANTHER)
Drosophila melanogaster (fruit fly):	Hsp67Bc	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER)
Caenorhabditis elegans (roundworm):	hsp-16.49	Alliance	DIOPT (Ensembl Compara\|InParanoid\|PANTHER)
Drosophila melanogaster (fruit fly):	CG13133	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

NCBI Annotation Information:

Annotation category: suggests misassembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	20	9,783,605 - 9,787,351 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	9,783,605 - 9,787,349 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	20	10,485,297 - 10,489,042 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	20	9,846,484 - 9,850,229 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	20	10,315,168 - 10,318,913 (+)	NCBI	Rnor_WKY
Rnor_6.0	20	10,438,444 - 10,442,189 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	10,438,444 - 10,442,187 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	12,621,549 - 12,625,628 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	20	11,297,259 - 11,301,004 (+)	NCBI		Celera
RH 3.4 Map	20	134.02	RGD
Cytogenetic Map	20	p12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autoimmune disease (ISO)

autoimmune polyendocrine syndrome type 1 (ISO)

cataract (IDA,IEP,ISO)

cataract 9 multiple types (ISO)

Cataract, Autosomal Recessive Congenital 1 (ISO)

developmental and epileptic encephalopathy 30 (ISO)

Eye Abnormalities (ISO)

galactosemia (IEP)

genetic disease (ISO)

globe disease (ISO)

homocystinuria (ISO)

leukocyte adhesion deficiency 1 (ISO)

ocular hypertension (IEP)

primary ciliary dyskinesia (ISO)

progressive myoclonus epilepsy (ISO)

uveitis (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(R)-lipoic acid (EXP)

(R,R,R)-alpha-tocopherol (EXP)

1,2-dichloroethane (ISO)

1,4-benzoquinone (ISO)

17alpha-ethynylestradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,3-dimethoxynaphthalene-1,4-dione (ISO)

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

5-azacytidine (EXP)

6-propyl-2-thiouracil (EXP)

all-trans-retinoic acid (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

beryllium sulfate (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

cadmium atom (ISO)

carbon nanotube (ISO)

chromium atom (ISO)

copper atom (EXP)

copper(0) (EXP)

Cuprizon (EXP)

cyclosporin A (ISO)

dicrotophos (ISO)

doxorubicin (ISO)

furan (EXP)

genistein (ISO)

lead nitrate (EXP)

lipoic acid (EXP)

manganese(II) chloride (EXP)

mercury atom (ISO)

mercury(0) (ISO)

N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal (ISO)

N-ethyl-N-nitrosourea (ISO)

N-nitrosodimethylamine (ISO)

naphthalene (EXP)

ozone (ISO)

perfluorooctanoic acid (EXP)

pirinixic acid (EXP)

potassium dichromate (ISO)

pregnenolone 16alpha-carbonitrile (EXP)

resveratrol (ISO)

sertraline (ISO)

silver atom (ISO)

silver(0) (ISO)

tetrachloroethene (ISO)

titanium dioxide (ISO)

urethane (ISO)

valproic acid (ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

actin filament organization (ISO)

apoptotic process (ISO)

apoptotic process involved in morphogenesis (ISO)

camera-type eye development (ISO)

embryonic camera-type eye morphogenesis (ISO)

lens development in camera-type eye (IBA,IEP,ISO)

lens fiber cell morphogenesis (ISO)

lens morphogenesis in camera-type eye (ISO)

microtubule-based process (ISO)

mitochondrion organization (ISO)

multicellular organism aging (IEP)

negative regulation of apoptotic process (ISO)

negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (ISO)

negative regulation of gene expression (ISO)

negative regulation of intracellular transport (ISO)

positive regulation of cell growth (ISO)

positive regulation of protein phosphorylation (ISO)

protein folding (IDA)

protein stabilization (ISO)

response to glucocorticoid (IEP)

response to hydrogen peroxide (IDA,ISO)

response to hypoxia (ISO)

response to lead ion (IEP)

response to UV-A (ISO)

response to xenobiotic stimulus (IEP)

tubulin complex assembly (ISO)

visual perception (ISO)

Cellular Component

cytoplasm (IDA)

cytoplasm (ISO)

cytosol (ISO)

nucleoplasm (ISO)

nucleus (ISO,ISS)

protein-containing complex (ISO)

Molecular Function

identical protein binding (IPI,ISO)

metal ion binding (IEA)

protein binding (IPI,ISO)

structural constituent of eye lens (TAS)

structural molecule activity (ISO)

unfolded protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

Endoplasmic Reticulum-associated degradation pathway (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Selective association of crystallins with lens 'native' membrane during dynamic cataractogenesis.	Cenedella RJ and Fleschner CR, Curr Eye Res. 1992 Aug;11(8):801-15.
2.	Comparison of post-translational modifications of alpha A-crystallin from normal and hereditary cataract rats.	Fujii N, etal., Amino Acids. 2004 Mar;26(2):147-52. Epub 2003 Dec 18.
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.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
5.	High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence.	Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
6.	Cell death triggered by a novel mutation in the alphaA-crystallin gene underlies autosomal dominant cataract linked to chromosome 21q.	Mackay DS, etal., Eur J Hum Genet 2003 Oct;11(10):784-93.
7.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
8.	Cataract-linked gammaD-crystallin mutants have weak affinity to lens chaperones alpha-crystallins.	Mishra S, etal., FEBS Lett. 2012 Feb 17;586(4):330-6. doi: 10.1016/j.febslet.2012.01.019. Epub 2012 Jan 28.
9.	Proteomic analysis of rat retina in a steroid-induced ocular hypertension model: potential vulnerability to oxidative stress.	Miyara N, etal., Jpn J Ophthalmol. 2008 Mar-Apr;52(2):84-90. Epub 2008 Apr 30.
10.	An unusually long non-coding region in rat lens alpha-crystallin messenger RNA.	Moormann RJ, etal., Nucleic Acids Res 1981 Oct 10;9(19):4813-22.
11.	Mouse Genome Database (MGD)	Mouse Genome Database (MGD)
12.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
13.	Pb2+ exposure alters the lens alpha A-crystallin protein profile in vivo and induces cataract formation in lens organ culture.	Neal R, etal., Toxicology. 2005 Aug 15;212(1):1-9.
14.	Ontogeny of alpha-crystallin subunits in the lens of human and rat embryos.	Oguni M, etal., Cell Tissue Res. 1994 Apr;276(1):151-4.
15.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
16.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
17.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
18.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
19.	Changes in physicochemical parameters and alpha-crystallin expression in the lens during cataract development in OXYS rats. 5.	Rumyantseva YV, etal., Biochemistry (Mosc). 2008 Nov;73(11):1176-82.
20.	Phe71 is essential for chaperone-like function in alpha A-crystallin.	Santhoshkumar P and Sharma KK, J Biol Chem. 2001 Dec 14;276(50):47094-9. Epub 2001 Oct 11.
21.	alpha A-crystallin is expressed in non-ocular tissues.	Srinivasan AN, etal., J Biol Chem 1992 Nov 15;267(32):23337-41.
22.	Influence of the C-terminal residues on oligomerization of alpha A-crystallin.	Thampi P and Abraham EC, Biochemistry. 2003 Oct 14;42(40):11857-63.
23.	Translocation of small heat shock proteins to the actin cytoskeleton upon proteasomal inhibition.	Verschuure P, etal., J Mol Cell Cardiol. 2002 Feb;34(2):117-28.
24.	Phosphorylation of alpha-crystallin in rat lenses is stimulated by H2O2 but phosphorylation has no effect on chaperone activity.	Wang K, etal., Exp Eye Res. 1995 Jul;61(1):115-24.
25.	Crystallin mRNA concentrations and distribution in lens of normal and galactosemic rats. Implications in development of sugar cataracts.	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 Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	20	9,783,605 - 9,787,351 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	9,783,605 - 9,787,349 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	20	10,485,297 - 10,489,042 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	20	9,846,484 - 9,850,229 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	20	10,315,168 - 10,318,913 (+)	NCBI	Rnor_WKY
Rnor_6.0	20	10,438,444 - 10,442,189 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	10,438,444 - 10,442,187 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	12,621,549 - 12,625,628 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	20	11,297,259 - 11,301,004 (+)	NCBI		Celera
RH 3.4 Map	20	134.02	RGD
Cytogenetic Map	20	p12	NCBI

CRYAA
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	21	43,169,008 - 43,172,810 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	21	43,169,008 - 43,172,805 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	21	44,589,118 - 44,592,920 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	21	43,462,210 - 43,465,982 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	21	43,462,209 - 43,465,982	NCBI
Celera	21	29,741,819 - 29,745,592 (+)	NCBI		Celera
Cytogenetic Map	21	q22.3	NCBI
HuRef	21	30,007,222 - 30,011,008 (+)	NCBI		HuRef
CHM1_1	21	44,149,981 - 44,153,753 (+)	NCBI		CHM1_1

Cryaa
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	31,896,905 - 31,900,704 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	31,896,781 - 31,900,707 (+)	Ensembl		GRCm39 Ensembl
GRCm38	17	31,677,931 - 31,681,730 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	31,677,807 - 31,681,733 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	31,814,890 - 31,818,669 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	17	31,406,661 - 31,410,057 (+)	NCBI		MGSCv36	mm8
Celera	17	32,595,462 - 32,599,241 (+)	NCBI		Celera
Cytogenetic Map	17	B1	NCBI
cM Map	17	17.09	NCBI

Cryaa
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955407	38,880,086 - 38,925,642 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955407	38,880,088 - 38,892,946 (-)	NCBI	ChiLan1.0	ChiLan1.0

CRYAA
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	31	37,307,070 - 37,310,262 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	31	37,307,093 - 37,310,247 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	31	36,462,427 - 36,465,619 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	31	36,850,477 - 36,853,680 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	31	36,850,500 - 36,853,665 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	31	36,719,304 - 36,722,496 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	31	36,704,182 - 36,707,379 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	31	37,196,540 - 37,199,740 (+)	NCBI		UU_Cfam_GSD_1.0

Cryaa
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404971	36,532,632 - 36,536,019 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936500	931,754 - 935,296 (-)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936500	931,804 - 935,185 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CRYAA
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	206,293,849 - 206,297,015 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	206,293,877 - 206,297,050 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

Cryaa
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624745	27,637,267 - 27,639,371 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624745	27,636,932 - 27,639,814 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Cryaa
34 total Variants

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.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1354642	Despr15	Despair related QTL 15		0.0027	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	20	1	24159021	Rat
1600382	Edcs3	Endometrial carcinoma susceptibility QTL3	3.5	0.003	uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	20	1	25159026	Rat
2317851	Alcrsp22	Alcohol response QTL 22	3.2	0.05	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	20	1	27339237	Rat
1641893	Alcrsp7	Alcohol response QTL 7			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	20	1	27339237	Rat
8694189	Bw153	Body weight QTL 153	3.13	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	20	1	29191651	Rat
9590275	Scort15	Serum corticosterone level QTL 15	3.48	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	20	1	29191651	Rat
7411650	Foco23	Food consumption QTL 23	20.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	1	29191651	Rat
9590109	Sffal8	Serum free fatty acids level QTL 8	5.32	0.01	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	20	1	29191651	Rat
9589155	Insul32	Insulin level QTL 32	6.38	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	20	1	29191651	Rat
6893685	Bw111	Body weight QTL 111	2.7	0.004	body mass (VT:0001259)	body weight (CMO:0000012)	20	1	32578807	Rat
7411668	Foco32	Food consumption QTL 32	8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	1	36600972	Rat
9590252	Scort12	Serum corticosterone level QTL 12	20.46	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	20	1	36600972	Rat
2305926	Iddm37	Insulin dependent diabetes mellitus QTL 37	6		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	20	1527842	46527842	Rat
1641915	Colcr9	Colorectal carcinoma resistance QTL 9	2.97	0.0024	intestine integrity trait (VT:0010554)	benign colorectal tumor number (CMO:0001795)	20	1530655	46530655	Rat
1598816	Memor12	Memory QTL 12	2.4		exploratory behavior trait (VT:0010471)	average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)	20	2606836	47606836	Rat
2317057	Aia27	Adjuvant induced arthritis QTL 27	2.83		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	20	2892597	26381954	Rat
1331772	Cdexp2	CD45RC expression in CD8 T cells QTL 2	5.7		CD8-positive T cell quantity (VT:0008077)	blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)	20	3621649	10078919	Rat
61432	Cia1	Collagen induced arthritis QTL 1			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	20	3621656	14101050	Rat
4889857	Pur27	Proteinuria QTL 27	12.2	0.001	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	20	4606607	17617956	Rat
1558640	Prcs2	Prostate cancer susceptibility QTL 2	3.3		prostate integrity trait (VT:0010571)	percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)	20	4606607	17617956	Rat
70154	Insul2	Insulin level QTL 2	3.75		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	20	6691706	17489458	Rat
1581577	Pur15	Proteinuria QTL 15	4.38	0.0002	urine total protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	20	8042410	17617956	Rat
4889870	Pur30	Proteinuria QTL 30	19	0.005	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	20	8042410	29322208	Rat
631265	Iresp1	Immunoglobin response QTL1	8.3		blood anti-double stranded DNA antibody amount (VT:0004762)	serum anti-DNA antibody level (CMO:0001533)	20	9039719	13461775	Rat

Markers in Region

RH94619

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	9,787,194 - 9,787,291 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	10,442,033 - 10,442,129	NCBI	Rnor6.0
Rnor_5.0	20	12,625,472 - 12,625,568	UniSTS	Rnor5.0
Celera	20	11,300,848 - 11,300,944	UniSTS
RH 3.4 Map	20	134.02	UniSTS

UniSTS:259595

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	20	10,438,587 - 10,440,172	NCBI	Rnor6.0
Rnor_5.0	20	12,622,026 - 12,623,611	UniSTS	Rnor5.0
Celera	20	11,297,402 - 11,298,987	UniSTS

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

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001289737	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_012534	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC126082	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473988	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000324	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M96949	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M96950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U47922	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	V01219	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000071248 ⟹ ENSRNOP00000067332

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	20	9,783,605 - 9,787,349 (+)	Ensembl
Rnor_6.0 Ensembl	20	10,438,444 - 10,442,187 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000075545 ⟹ ENSRNOP00000065714

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	10,438,489 - 10,442,181 (+)	Ensembl

RefSeq Acc Id:

NM_001289737 ⟹ NP_001276666

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	20	9,783,652 - 9,787,343 (+)	NCBI
Rnor_6.0	20	10,438,489 - 10,442,181 (+)	NCBI
Celera	20	11,297,304 - 11,300,996 (+)	NCBI

Sequence:

show sequence

TCACCAACCAGAACATGGACGTCACCATCCAGCACCCTTGGTTCAAGCGCGCCCTGGGGCCCTT
CTACCCCAGCCGACTGTTCGACCAGTTCTTCGGCGAGGGCCTTTTTGAATACGACCTGCTGCCC
TTCCTGTCTTCCACCATCAGCCCCTACTACCGCCAGTCTCTCTTCCGCACAGTGTTGGACTCCG
GCATCTCTGAGCTCATGACCCATATGTGGTTTGTAATGCACCAACCACATGCTGGAAACCCCAA
GAACAACCCCGGCAAGGTCCGATCTGACCGGGACAAGTTTGTCATCTTCTTGGATGTGAAGCAC
TTCTCTCCTGAGGACCTCACCGTGAAGGTACTGGAAGATTTCGTGGAGATCCATGGCAAACACA
ACGAGAGGCAGGATGACCATGGCTACATTTCCCGTGAATTTCACCGTCGCTACCGTCTGCCTTC
CAATGTGGACCAGTCCGCCCTCTCCTGCTCCTTGTCTGCGGATGGCATGCTGACCTTCTCTGGC
CCCAAGGTCCAGTCTGGCTTGGATGCTGGCCACAGCGAGAGGGCCATTCCCGTGTCACGGGAGG
AGAAGCCCAGCTCGGCACCCTCGTCCTGAGCAGGCCTCGCCTTGGTTGTCCCCTGAGGCCCCTG
ATCCATCCAGCCCAGGGGCCACAGCAAAGAGTCTGCCTTCCTGACTTCTTTTCTTTCTCTTTGT
TTCCTTTCCACTTTCTCAGAGGGCTGAGGATTTGAGAGAGTGGCTTAAAGAGCTTGGGGGGTCT
TGGCCTGAGATGGCTGCGGGTTCAGGGTGACCCAGGCTCAACACCAGCCGGTCAGAGGGAATGA
TGGCATTGAACTCTTAAGATTTCCTGTCCTCCTGGAAAGTGGCATCGAGCTCTGCTCCAAAGGC
AGAGTGAATGGTGGCTAACCAACCCCAAGAGCCCTCTGCCAAGCCCCTGGATGGCAGCCTCCCA
CCCCCTTTGCCCACACTTACCGCAGGCGTATATGCTGGGCTCCAACAGTCCGCTTCTCTCATGC
CCTCTTCCTGTGACTTTCTCTACTATGTAGTATCGCTCCTGGGGACCCTGGTCACCCATGAGAA
TGGAGCCCCTGGCAGACAATAAAGAGCAGGTG

hide sequence

RefSeq Acc Id:

NM_012534 ⟹ NP_036666

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	20	9,783,605 - 9,787,351 (+)	NCBI
Rnor_6.0	20	10,438,444 - 10,442,189 (+)	NCBI
Rnor_5.0	20	12,621,549 - 12,625,628 (+)	NCBI
Celera	20	11,297,259 - 11,301,004 (+)	NCBI

Sequence:

show sequence

CCCAGAGGCTCCTGCCTGACTCATTGCCAGCCTTCGGTCCCTGCATCACCAACCAGAACATGGA
CGTCACCATCCAGCACCCTTGGTTCAAGCGCGCCCTGGGGCCCTTCTACCCCAGCCGACTGTTC
GACCAGTTCTTCGGCGAGGGCCTTTTTGAATACGACCTGCTGCCCTTCCTGTCTTCCACCATCA
GCCCCTACTACCGCCAGTCTCTCTTCCGCACAGTGTTGGACTCCGGCATCTCTGAGGTCCGATC
TGACCGGGACAAGTTTGTCATCTTCTTGGATGTGAAGCACTTCTCTCCTGAGGACCTCACCGTG
AAGGTACTGGAAGATTTCGTGGAGATCCATGGCAAACACAACGAGAGGCAGGATGACCATGGCT
ACATTTCCCGTGAATTTCACCGTCGCTACCGTCTGCCTTCCAATGTGGACCAGTCCGCCCTCTC
CTGCTCCTTGTCTGCGGATGGCATGCTGACCTTCTCTGGCCCCAAGGTCCAGTCTGGCTTGGAT
GCTGGCCACAGCGAGAGGGCCATTCCCGTGTCACGGGAGGAGAAGCCCAGCTCGGCACCCTCGT
CCTGAGCAGGCCTCGCCTTGGTTGTCCCCTGAGGCCCCTGATCCATCCAGCCCAGGGGCCACAG
CAAAGAGTCTGCCTTCCTGACTTCTTTTCTTTCTCTTTGTTTCCTTTCCACTTTCTCAGAGGGC
TGAGGATTTGAGAGAGTGGCTTAAAGAGCTTGGGGGGTCTTGGCCTGAGATGGCTGCGGGTTCA
GGGTGACCCAGGCTCAACACCAGCCGGTCAGAGGGAATGATGGCATTGAACTCTTAAGATTTCC
TGTCCTCCTGGAAAGTGGCATCGAGCTCTGCTCCAAAGGCAGAGTGAATGGTGGCTAACCAACC
CCAAGAGCCCTCTGCCAAGCCCCTGGATGGCAGCCTCCCACCCCCTTTGCCCACACTTACCGCA
GGCGTATATGCTGGGCTCCAACAGTCCGCTTCTCTCATGCCCTCTTCCTGTGACTTTCTCTACT
ATGTAGTATCGCTCCTGGGGACCCTGGTCACCCATGAGAATGGAGCCCCTGGCAGACAATAAAG
AGCAGGTGACAAGCAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001276666	(Get FASTA)	NCBI Sequence Viewer
	NP_036666	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA40644	(Get FASTA)	NCBI Sequence Viewer
	AAA40645	(Get FASTA)	NCBI Sequence Viewer
	AAA93367	(Get FASTA)	NCBI Sequence Viewer
	AAI26083	(Get FASTA)	NCBI Sequence Viewer
	CAA24530	(Get FASTA)	NCBI Sequence Viewer
	EDL97027	(Get FASTA)	NCBI Sequence Viewer
	EDL97028	(Get FASTA)	NCBI Sequence Viewer
	P24623	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_036666 ⟸ NM_012534
- Peptide Label:	isoform 1
- UniProtKB:	P24623 (UniProtKB/Swiss-Prot), A0JN13 (UniProtKB/TrEMBL)
- Sequence:	show sequence MDVTIQHPWFKRALGPFYPSRLFDQFFGEGLFEYDLLPFLSSTISPYYRQSLFRTVLDSGISEV RSDRDKFVIFLDVKHFSPEDLTVKVLEDFVEIHGKHNERQDDHGYISREFHRRYRLPSNVDQSA LSCSLSADGMLTFSGPKVQSGLDAGHSERAIPVSREEKPSSAPSS hide sequence

RefSeq Acc Id:	NP_001276666 ⟸ NM_001289737
- Peptide Label:	isoform 2
- UniProtKB:	P24623 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MDVTIQHPWFKRALGPFYPSRLFDQFFGEGLFEYDLLPFLSSTISPYYRQSLFRTVLDSGISEL MTHMWFVMHQPHAGNPKNNPGKVRSDRDKFVIFLDVKHFSPEDLTVKVLEDFVEIHGKHNERQD DHGYISREFHRRYRLPSNVDQSALSCSLSADGMLTFSGPKVQSGLDAGHSERAIPVSREEKPSS APSS hide sequence

RefSeq Acc Id:

ENSRNOP00000065714 ⟸ ENSRNOT00000075545

RefSeq Acc Id:

ENSRNOP00000067332 ⟸ ENSRNOT00000071248

Protein Domains

sHSP

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-P24623-F1-model_v2	AlphaFold	P24623	1-196	view protein structure

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 Assembly	Chr	Position (strand)	Source
Rnor_6.0	20	10,438,435 - 10,438,495	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:2413	AgrOrtholog
BioCyc Gene	G2FUF-4304	BioCyc
Ensembl Genes	ENSRNOG00000047175	Ensembl
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_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

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

Imported Annotations - KEGG (archival)