Ahcy (adenosylhomocysteinase) - Rat Genome Database

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Gene: Ahcy (adenosylhomocysteinase) Rattus norvegicus
Analyze
Symbol: Ahcy
Name: adenosylhomocysteinase
RGD ID: 69260
Description: Exhibits adenosylhomocysteinase activity; identical protein binding activity; and nucleotide binding activity. Involved in several processes, including S-adenosylhomocysteine catabolic process; chronic inflammatory response to antigenic stimulus; and circadian sleep/wake cycle. Localizes to cytosol; neuron projection; and nucleus. Used to study hyperhomocysteinemia and pyridoxine deficiency anemia. Human ortholog(s) of this gene implicated in hypermethioninemia with deficiency of S-adenosylhomocysteine hydrolase. Orthologous to human AHCY (adenosylhomocysteinase); PARTICIPATES IN methionine cycle/metabolic pathway; choline metabolic pathway; glycine N-methyltransferase deficiency pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dibromophenyl 2,4,5-tribromophenyl ether; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: adoHcyase; S-adenosyl-L-homocysteine hydrolase; S-adenosylhomocysteine hydrolase
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
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
mRatBN7.23143,569,134 - 143,584,359 (-)NCBI
Rnor_6.0 Ensembl3150,587,833 - 150,603,082 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03150,587,833 - 150,603,057 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03156,957,240 - 156,972,464 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43145,544,834 - 145,560,058 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13145,450,455 - 145,465,680 (-)NCBI
Celera3142,299,485 - 142,314,709 (-)NCBICelera
Cytogenetic Map3q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrabromodibenzodioxine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (EXP)
2-hydroxypropanoic acid  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzoates  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
buspirone  (EXP)
buta-1,3-diene  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
ceruletide  (EXP)
chloropicrin  (ISO)
choline  (EXP,ISO)
cisplatin  (ISO)
clofibrate  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
CU-O LINKAGE  (ISO)
D-penicillamine  (ISO)
diarsenic trioxide  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
flavonoids  (EXP)
folic acid  (EXP,ISO)
formaldehyde  (ISO)
fumonisin B1  (ISO)
glafenine  (EXP)
glycine betaine  (EXP,ISO)
homocysteine  (ISO)
isoprenaline  (ISO)
L-methionine  (EXP,ISO)
leflunomide  (EXP)
lovastatin  (ISO)
methapyrilene  (EXP)
methotrexate  (ISO)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosomorpholine  (EXP)
Nonylphenol  (EXP)
paracetamol  (EXP,ISO)
PCB138  (EXP,ISO)
perfluorododecanoic acid  (EXP)
phenobarbital  (EXP)
pirinixic acid  (ISO)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propiconazole  (ISO)
Propiverine  (EXP)
rac-lactic acid  (ISO)
resveratrol  (ISO)
S-adenosyl-L-homocysteine  (ISO)
sarin  (ISO)
sodium arsenite  (ISO)
streptozocin  (ISO)
tetrachloromethane  (ISO)
tetrahydrocurcumin  (ISO)
thimerosal  (ISO)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trimellitic anhydride  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
warfarin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytosol  (IBA,IDA,ISO,TAS)
melanosome  (IEA)
neuron projection  (IDA)
nucleus  (IDA)

Molecular Function

References

References - curated
1. Baric I, etal., Proc Natl Acad Sci U S A 2004 Mar 23;101(12):4234-9. Epub 2004 Mar 15.
2. Blom HJ and Smulders Y, J Inherit Metab Dis. 2011 Feb;34(1):75-81. doi: 10.1007/s10545-010-9177-4. Epub 2010 Sep 4.
3. Broch OJ and Ueland PM, J Neurochem. 1980 Aug;35(2):484-8.
4. Chagoya de Sanchez V, etal., Brain Res. 1993 May 28;612(1-2):115-21.
5. Chen YF, etal., Circulation. 2002 Sep 3;106(10):1275-81.
6. Eloranta TO, etal., J Biochem. 1990 Oct;108(4):593-8.
7. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. Gilmour J, etal., Biochem J. 1997 Sep 1;326 ( Pt 2):471-7.
9. GOA data from the GO Consortium
10. Gomi T, etal., Biochim Biophys Acta. 1989 Feb 2;994(2):172-9.
11. Huang Y, etal., J Biol Chem 2002 Mar 1;277(9):7477-82.
12. KEGG
13. Kobayashi S, etal., J Neurochem. 2000 Feb;74(2):621-32.
14. Lu SC and Mato JM, Physiol Rev. 2012 Oct;92(4):1515-42. doi: 10.1152/physrev.00047.2011.
15. MGD data from the GO Consortium
16. NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. Nguyen TT, etal., J Nutr Sci Vitaminol (Tokyo). 2001 Jun;47(3):188-94.
18. Ogawa H, etal., Proc Natl Acad Sci U S A 1987 Feb;84(3):719-23.
19. OMIM Disease Annotation Pipeline
20. Ovechkin AV, etal., Am J Physiol Lung Cell Mol Physiol. 2006 Nov;291(5):L905-11. Epub 2006 Jun 30.
21. Patel BT and Tudball N, Brain Res. 1986 Apr 9;370(2):250-64.
22. Pipeline to import KEGG annotations from KEGG into RGD
23. Pipeline to import SMPDB annotations from SMPDB into RGD
24. RGD automated data pipeline
25. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
26. RGD automated import pipeline for gene-chemical interactions
27. Saso Y, etal., J Pharmacol Exp Ther. 2001 Jan;296(1):106-12.
28. Tyagi N, etal., J Mol Neurosci. 2012 May;47(1):128-38. doi: 10.1007/s12031-011-9695-z. Epub 2012 Jan 3.
Additional References at PubMed
PMID:3759971   PMID:7744082   PMID:8419320   PMID:10387078   PMID:10913437   PMID:11927587   PMID:12023972   PMID:12477932   PMID:17310100   PMID:19056867   PMID:19805518   PMID:20458337  
PMID:22871113   PMID:23376485   PMID:23533145  


Genomics

Comparative Map Data
Ahcy
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23143,569,134 - 143,584,359 (-)NCBI
Rnor_6.0 Ensembl3150,587,833 - 150,603,082 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03150,587,833 - 150,603,057 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03156,957,240 - 156,972,464 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43145,544,834 - 145,560,058 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13145,450,455 - 145,465,680 (-)NCBI
Celera3142,299,485 - 142,314,709 (-)NCBICelera
Cytogenetic Map3q41NCBI
AHCY
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2034,280,268 - 34,311,802 (-)EnsemblGRCh38hg38GRCh38
GRCh382034,235,012 - 34,311,976 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372032,868,074 - 32,899,608 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362032,331,737 - 32,354,784 (-)NCBINCBI36hg18NCBI36
Build 342032,331,736 - 32,354,784NCBI
Celera2029,617,551 - 29,649,079 (-)NCBI
Cytogenetic Map20q11.22ENTREZGENE
HuRef2029,649,874 - 29,681,357 (-)NCBIHuRef
CHM1_12032,769,165 - 32,800,706 (-)NCBICHM1_1
Ahcy
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392154,901,230 - 154,916,417 (-)NCBIGRCm39mm39
GRCm39 Ensembl2154,901,230 - 154,916,417 (-)Ensembl
GRCm382155,059,310 - 155,074,497 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2155,059,310 - 155,074,497 (-)EnsemblGRCm38mm10GRCm38
MGSCv372154,885,046 - 154,900,233 (-)NCBIGRCm37mm9NCBIm37
MGSCv362154,750,751 - 154,765,867 (-)NCBImm8
Celera2160,986,232 - 161,001,420 (-)NCBICelera
Cytogenetic Map2H1NCBI
cM Map276.94NCBI
Ahcy
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542226,992,295 - 27,013,100 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542226,992,295 - 27,013,100 (+)NCBIChiLan1.0ChiLan1.0
AHCY
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12031,738,007 - 31,760,803 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2031,738,007 - 31,760,803 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02030,603,701 - 30,626,835 (-)NCBIMhudiblu_PPA_v0panPan3
AHCY
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12423,410,553 - 23,423,494 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2423,411,140 - 23,419,767 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2423,058,324 - 23,071,803 (-)NCBI
ROS_Cfam_1.02424,101,284 - 24,114,771 (-)NCBI
UMICH_Zoey_3.12423,389,987 - 23,403,460 (-)NCBI
UNSW_CanFamBas_1.02423,484,066 - 23,497,508 (-)NCBI
UU_Cfam_GSD_1.02423,923,430 - 23,937,131 (-)NCBI
Ahcy
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640172,415,357 - 172,434,758 (-)NCBI
SpeTri2.0NW_0049365616,314,797 - 6,333,961 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
AHCY
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1737,726,077 - 37,744,461 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11737,726,084 - 37,744,378 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21742,693,955 - 42,706,644 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap17q21NCBI
AHCY
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1238,579,254 - 38,601,218 (-)NCBI
ChlSab1.1 Ensembl238,579,024 - 38,601,208 (-)Ensembl
Ahcy
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248425,053,336 - 5,071,902 (+)NCBI

Position Markers
RH141077  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map3q42UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)330846101172879276Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)343295930163640485Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)343295930163640485Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)345406058177699992Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)348561928155263151Rat
1581568Rf53Renal function QTL 53total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)358204463170534769Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)361241033165369047Rat
1581546Pur13Proteinuria QTL 132.930.0335total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)381136227154416635Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)399465522168732722Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)3102152812155263151Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)3103141814176418101Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)3103141814176418101Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3103141814176418101Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)3103141944170934860Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3114376250159376250Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3119471263164471263Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3125848628170848628Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3126575595153412619Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3126575595165355668Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3128986468173986468Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3129787213177699992Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3130006659175006659Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3132875075176418101Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3136876155170935007Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3138374177177699992Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3138374177177699992Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3139578365177699992Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3146232777177699992Rat
5686842Rf59Renal function QTL 59urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)3147072047154807958Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3148034701177699992Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3148348517171467264Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3148348739163640325Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3150368003177699992Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:104
Count of miRNA genes:79
Interacting mature miRNAs:98
Transcripts:ENSRNOT00000024310
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 circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 35 57 41 19 41 5 8 74 35 41 11 5
Low 8 3 3 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024310   ⟹   ENSRNOP00000024310
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3150,587,833 - 150,603,082 (-)Ensembl
RefSeq Acc Id: NM_017201   ⟹   NP_058897
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23143,569,134 - 143,584,359 (-)NCBI
Rnor_6.03150,587,833 - 150,603,057 (-)NCBI
Rnor_5.03156,957,240 - 156,972,464 (-)NCBI
RGSC_v3.43145,544,834 - 145,560,058 (-)RGD
Celera3142,299,485 - 142,314,709 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058897   ⟸   NM_017201
- UniProtKB: P10760 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000024310   ⟸   ENSRNOT00000024310
Protein Domains
AdoHcyase_NAD

Transcriptome

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

Promoters
RGD ID:13692579
Promoter ID:EPDNEW_R3104
Type:multiple initiation site
Name:Ahcy_1
Description:adenosylhomocysteinase
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_6.03150,603,095 - 150,603,155EPDNEW

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)
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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)
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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
F344/NRrrc (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 156966341 156966342 G C snv IS-Tlk/Kyo (KyushuU)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 150592276 150592277 C T snv BN/SsN (MCW), ACI/N (MCW), Buf/N (MCW), F344/NRrrc (MCW)
3 150596836 150596837 G C snv SS/JrHsdMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), GH/OmrMcwi (MCW), ACI/EurMcwi (MCW)
3 150596885 150596886 G A snv SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), SBN/Ygl (MCW), GH/OmrMcwi (MCW), ACI/EurMcwi (MCW)
3 150596934 150596935 G C snv CDR


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 145547242 145547243 A T snv FHL/EurMcwi (MCW), HCR/2Mco (UMich), LCR/1Mco (UMich), SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), FHH/EurMcwi (MCW)
3 145547338 145547339 G A snv SR/JrHsd (MCW), FHH/EurMcwi (MCW)
3 145549277 145549278 C T snv BN/SsN (KNAW), LCR/2Mco (UMich), HCR/1Mco (UMich), SR/JrHsd (MCW), ACI/N (KNAW), LCR/1Mco (UMich), F344/NRrrc (KNAW), BUF/N (KNAW), BN/NHsdMcwi (KNAW), FHH/EurMcwi (MCW), ACI/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69260 AgrOrtholog
Ensembl Genes ENSRNOG00000017777 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000024310 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000024310 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.1480 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5599994 IMAGE-MGC_LOAD
InterPro Adenosylhomocyst_ase-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Adenosylhomocysteinase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ado_hCys_hydrolase_NAD-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NAD(P)-bd_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S-Ado-L-homoCys_hydrolase_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29443 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72509 IMAGE-MGC_LOAD
NCBI Gene 29443 ENTREZGENE
PANTHER PTHR23420 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam AdoHcyase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  AdoHcyase_NAD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB AHCY RGD
PhenoGen Ahcy PhenoGen
PIRSF Ad_hcy_hydrolase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ADOHCYASE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ADOHCYASE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART AdoHcyase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  AdoHcyase_NAD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF51735 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs ahcY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt P10760 ENTREZGENE
  Q6P743_RAT UniProtKB/TrEMBL
  SAHH_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-09-17 Ahcy  adenosylhomocysteinase  Ahcy  S-adenosylhomocysteine hydrolase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Ahcy  S-adenosylhomocysteine hydrolase      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function a competitive inhibitor of s-adenosyl-l-methionine-dependent methyl transferase reactions 724707
gene_process may play a key role in the control of methylations via regulation of the intracellular concentration of adenosylhomocysteine 724707