Pde6a (phosphodiesterase 6A) - Rat Genome Database

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Gene: Pde6a (phosphodiesterase 6A) Rattus norvegicus
Analyze
Symbol: Pde6a
Name: phosphodiesterase 6A
RGD ID: 1306835
Description: Predicted to enable 3',5'-cyclic-AMP phosphodiesterase activity and 3',5'-cyclic-GMP phosphodiesterase activity. Predicted to be involved in cAMP-mediated signaling and retina development in camera-type eye. Predicted to act upstream of or within photoreceptor cell maintenance. Predicted to be active in photoreceptor outer segment membrane. Human ortholog(s) of this gene implicated in retinitis pigmentosa 43. Orthologous to human PDE6A (phosphodiesterase 6A); PARTICIPATES IN altered visual phototransduction pathway; retinitis pigmentosa pathway; visual phototransduction pathway; INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; bisphenol A; furan.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC307401; phosphodiesterase 6A, cGMP-specific, rod, alpha; rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81856,947,249 - 57,019,015 (+)NCBIGRCr8
mRatBN7.21854,676,863 - 54,748,640 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1854,676,863 - 54,748,816 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1856,765,069 - 56,842,167 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01857,479,673 - 57,556,770 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01855,300,743 - 55,372,519 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01856,544,652 - 56,617,480 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1856,544,652 - 56,617,480 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01855,775,712 - 55,848,855 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41857,194,726 - 57,268,536 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11857,267,060 - 57,339,325 (+)NCBI
Celera1852,829,228 - 52,901,931 (+)NCBICelera
Cytogenetic Map18q12.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Characteristics of photoreceptor PDE (PDE6): similarities and differences to PDE5. Cote RH Int J Impot Res. 2004 Jun;16 Suppl 1:S28-33.
2. Genes and mutations causing retinitis pigmentosa. Daiger SP, etal., Clin Genet. 2013 Aug;84(2):132-41. doi: 10.1111/cge.12203. Epub 2013 Jun 19.
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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. Online Mendelian Inheritance in Man, OMIM (TM). Online Mendelian Inheritance in Man, OMIM (TM).
7. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Comprehensive gene review and curation RGD comprehensive gene curation
11. Photoreceptor degeneration: genetic and mechanistic dissection of a complex trait. Wright AF, etal., Nat Rev Genet. 2010 Apr;11(4):273-84. doi: 10.1038/nrg2717.
Additional References at PubMed
PMID:21052544   PMID:22183357  


Genomics

Comparative Map Data
Pde6a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81856,947,249 - 57,019,015 (+)NCBIGRCr8
mRatBN7.21854,676,863 - 54,748,640 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1854,676,863 - 54,748,816 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1856,765,069 - 56,842,167 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01857,479,673 - 57,556,770 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01855,300,743 - 55,372,519 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01856,544,652 - 56,617,480 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1856,544,652 - 56,617,480 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01855,775,712 - 55,848,855 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41857,194,726 - 57,268,536 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11857,267,060 - 57,339,325 (+)NCBI
Celera1852,829,228 - 52,901,931 (+)NCBICelera
Cytogenetic Map18q12.1NCBI
PDE6A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385149,857,953 - 149,944,793 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5149,857,953 - 149,944,793 (-)EnsemblGRCh38hg38GRCh38
GRCh375149,237,516 - 149,324,356 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365149,220,410 - 149,304,549 (-)NCBINCBI36Build 36hg18NCBI36
Build 345149,220,419 - 149,304,549NCBI
Celera5145,318,881 - 145,405,751 (-)NCBICelera
Cytogenetic Map5q32NCBI
HuRef5144,384,347 - 144,472,303 (-)NCBIHuRef
CHM1_15148,670,177 - 148,757,019 (-)NCBICHM1_1
T2T-CHM13v2.05150,394,428 - 150,481,347 (-)NCBIT2T-CHM13v2.0
Pde6a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391861,353,546 - 61,426,698 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1861,353,387 - 61,422,995 (+)EnsemblGRCm39 Ensembl
GRCm381861,220,474 - 61,289,750 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1861,220,315 - 61,289,924 (+)EnsemblGRCm38mm10GRCm38
MGSCv371861,380,153 - 61,449,404 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361861,345,868 - 61,415,119 (+)NCBIMGSCv36mm8
Celera1862,507,018 - 62,573,593 (+)NCBICelera
Cytogenetic Map18E1NCBI
cM Map1834.41NCBI
Pde6a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554154,566,271 - 4,637,070 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554154,556,636 - 4,637,070 (+)NCBIChiLan1.0ChiLan1.0
PDE6A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24145,086,567 - 145,173,739 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15143,226,116 - 143,313,288 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05145,283,505 - 145,369,596 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15151,289,225 - 151,375,952 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5151,294,041 - 151,375,832 (-)Ensemblpanpan1.1panPan2
PDE6A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1459,103,965 - 59,163,857 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl459,103,945 - 59,163,857 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha458,869,721 - 58,929,621 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0459,584,148 - 59,644,927 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl459,584,982 - 59,644,927 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1459,373,301 - 59,433,215 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0459,487,640 - 59,547,674 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0460,018,959 - 60,078,866 (+)NCBIUU_Cfam_GSD_1.0
Pde6a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213143,444,055 - 143,514,360 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365045,018,064 - 5,092,024 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365045,018,171 - 5,088,333 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDE6A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2150,927,770 - 150,985,318 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12150,926,652 - 150,986,050 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22157,742,261 - 157,800,838 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PDE6A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12352,465,497 - 52,550,671 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2352,468,022 - 52,549,599 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603425,167,432 - 25,252,764 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pde6a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247749,182,865 - 9,248,537 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247749,179,272 - 9,291,484 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pde6a
418 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:122
Count of miRNA genes:95
Interacting mature miRNAs:107
Transcripts:ENSRNOT00000024171
Prediction methods:Microtar, 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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182479697779788953Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)181194429959330563Rat
1331730Scl27Serum cholesterol level QTL 273.826blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)185229287559796643Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182137289383213037Rat
1331742Bp228Blood pressure QTL 2283.88752arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183135940859796643Rat
1298072Cia26Collagen induced arthritis QTL 263.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)185470976983828827Rat
1331736Bp227Blood pressure QTL 2272.791arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)184671876359796643Rat
1300125Rf26Renal function QTL 263.2urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)185253986365844950Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184334502283828827Rat
1331727Bp237Blood pressure QTL 2373.053arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183135940861698465Rat
9589041Epfw12Epididymal fat weight QTL 1217.080.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)184664067583828827Rat
8694432Bw165Body weight QTL 1653.810.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)184664067583828827Rat
9589816Gluco68Glucose level QTL 687.250.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)182979296574792965Rat
1331774Bp226Blood pressure QTL 2264.41065arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183135940859796643Rat
61360EaeyExperimental allergic encephalomyelitis QTL y3nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)184698893960377753Rat
2300177Bmd65Bone mineral density QTL 6519.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)182896485373964853Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181179151883218561Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183135940883218561Rat
12880368Bw187Body weight QTL 1870.045body mass (VT:0001259)body weight (CMO:0000012)185253976376104388Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)183819245583192455Rat
2293658Bmd23Bone mineral density QTL 237.30.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)185146473363636873Rat
1359020Ppulsi2Prepulse inhibition QTL 22.71prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)185229287573997283Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18420794160377792Rat
9590318Scort22Serum corticosterone level QTL 227.640.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)182979296574792965Rat
1331752Bw27Body weight QTL 272.963body mass (VT:0001259)body weight (CMO:0000012)185229287565845095Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181179151883218561Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182979296574792965Rat
12904069Cm123Cardiac mass QTL 1230.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)185253976376104388Rat
1331798Bp224Blood pressure QTL 2243.53873arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183135940859796643Rat
12904070Cm124Cardiac mass QTL 1240.01heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)185253976376104388Rat
2303584Gluco55Glucose level QTL 552blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)184852004483828827Rat
12904071Am18Aortic mass QTL 180.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)185253976376104388Rat
61383Bp47Blood pressure QTL 4717.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)183127168160377755Rat
12904067Cm122Cardiac mass QTL 1220.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)185253976376104388Rat
1331806Bp229Blood pressure QTL 2294.36484arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184671876357867167Rat
2301417Bp319Blood pressure QTL 3190.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)185253976376104388Rat
12904073Kidm71Kidney mass QTL 710.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)185253976376104388Rat
1331780Bp238Blood pressure QTL 2383.269arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184671876359796643Rat
738008Hcar14Hepatocarcinoma resistance QTL 144.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion number (CMO:0001462)185146473383218561Rat
1331776Bp225Blood pressure QTL 2252.829arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)183135940859796643Rat
6903359Bp355Blood pressure QTL 3553.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194454459796478Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183587072380870723Rat
6903345Bp349Blood pressure QTL 3493.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184671893559796478Rat
2313082Bss85Bone structure and strength QTL 850.80.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)181495133759951337Rat
6903347Bp350Blood pressure QTL 3504.4arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183135953059796478Rat
8694366Abfw8Abdominal fat weight QTL 86.380.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)184664067583828827Rat
6903349Bp351Blood pressure QTL 3513.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184671893559796478Rat
631509Sald2Serum aldosterone level QTL 22.9blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)185253976369140759Rat
2300157Bmd66Bone mineral density QTL 6613.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)182896485373964853Rat
738005Anxrr11Anxiety related response QTL 113.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)183003981375039813Rat
6903351Bp352Blood pressure QTL 3523.3arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184671893559796478Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183139332077209694Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)181800759963571040Rat
2293704Bss35Bone structure and strength QTL 354.590.0002femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)182896485373964853Rat
2325839Bp348Blood pressure QTL 3480.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182557098570570985Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181927890183218561Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181179151863636873Rat
8694378Bw157Body weight QTL 1573.590.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)182979296574792965Rat
1600375Mcs22Mammary carcinoma susceptibility QTL 223.3mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)185253976363933058Rat
2303571Bw92Body weight QTL 923body mass (VT:0001259)body weight (CMO:0000012)184852004483828827Rat
1598826Anxrr20Anxiety related response QTL 203.04body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)184143297183828827Rat
61429Cia17Collagen induced arthritis QTL 174.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)183135940870263868Rat
7411719Strs5Sensitivity to stroke QTL 59.4cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)184999995865845095Rat

Markers in Region
RH135441  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21854,697,873 - 54,698,075 (+)MAPPERmRatBN7.2
Rnor_6.01856,565,661 - 56,565,862NCBIRnor6.0
Rnor_5.01855,796,721 - 55,796,922UniSTSRnor5.0
RGSC_v3.41857,215,735 - 57,215,936UniSTSRGSC3.4
Celera1852,850,237 - 52,850,438UniSTS
Cytogenetic Map18q12.1UniSTS
RH139280  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21854,748,272 - 54,748,438 (+)MAPPERmRatBN7.2
Rnor_6.01856,616,109 - 56,616,274NCBIRnor6.0
Rnor_5.01855,847,484 - 55,847,649UniSTSRnor5.0
RGSC_v3.41857,267,165 - 57,267,330UniSTSRGSC3.4
Celera1852,900,589 - 52,900,754UniSTS
RH 3.4 Map18535.5UniSTS
Cytogenetic Map18q12.1UniSTS
RH139346  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21854,703,049 - 54,703,188 (+)MAPPERmRatBN7.2
Rnor_6.01856,570,836 - 56,570,974NCBIRnor6.0
Rnor_5.01855,801,897 - 55,802,035UniSTSRnor5.0
RGSC_v3.41857,220,910 - 57,221,048UniSTSRGSC3.4
Celera1852,855,408 - 52,855,546UniSTS
Cytogenetic Map18q12.1UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 9 12 45 41 45 17 22 17 6 97 46 30 17 57 28

Sequence


Ensembl Acc Id: ENSRNOT00000024171   ⟹   ENSRNOP00000024171
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1854,676,863 - 54,748,816 (+)Ensembl
Rnor_6.0 Ensembl1856,544,652 - 56,617,480 (+)Ensembl
RefSeq Acc Id: NM_001107386   ⟹   NP_001100856
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81856,947,249 - 57,019,015 (+)NCBI
mRatBN7.21854,676,863 - 54,748,640 (+)NCBI
Rnor_6.01856,544,652 - 56,617,480 (+)NCBI
Rnor_5.01855,775,712 - 55,848,855 (+)NCBI
RGSC_v3.41857,194,726 - 57,268,536 (+)RGD
Celera1852,829,228 - 52,901,931 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100856 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM14597 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024171.4
RefSeq Acc Id: NP_001100856   ⟸   NM_001107386
- UniProtKB: D3Z8C9 (UniProtKB/TrEMBL),   A6IXG6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000024171   ⟸   ENSRNOT00000024171
Protein Domains
PDEase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z8C9-F1-model_v2 AlphaFold D3Z8C9 1-860 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306835 AgrOrtholog
BioCyc Gene G2FUF-7338 BioCyc
Ensembl Genes ENSRNOG00000017816 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024171.6 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1300.10 UniProtKB/TrEMBL
  3.30.450.40 UniProtKB/TrEMBL
InterPro GAF UniProtKB/TrEMBL
  GAF_dom_like UniProtKB/TrEMBL
  Metal-dep_PHydrolase_HD_dom UniProtKB/TrEMBL
  PDEase UniProtKB/TrEMBL
  PDEase UniProtKB/TrEMBL
  PDEase_catalytic_dom_sf UniProtKB/TrEMBL
  PDEase_CS UniProtKB/TrEMBL
KEGG Report rno:307401 UniProtKB/TrEMBL
NCBI Gene 307401 ENTREZGENE
PANTHER CYCLIC NUCLEOTIDE PHOSPHODIESTERASE UniProtKB/TrEMBL
  PTHR11347:SF115 UniProtKB/TrEMBL
Pfam GAF UniProtKB/TrEMBL
  PDEase_I UniProtKB/TrEMBL
PhenoGen Pde6a PhenoGen
PRINTS PDIESTERASE1 UniProtKB/TrEMBL
PROSITE PDEASE_I UniProtKB/TrEMBL
  PDEASE_I_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000017816 RatGTEx
SMART GAF UniProtKB/TrEMBL
  HDc UniProtKB/TrEMBL
Superfamily-SCOP GAF domain-like UniProtKB/TrEMBL
  HD-domain/PDEase-like UniProtKB/TrEMBL
UniProt A6IXG6 ENTREZGENE, UniProtKB/TrEMBL
  D3Z8C9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-30 Pde6a  phosphodiesterase 6A  Pde6a  phosphodiesterase 6A, cGMP-specific, rod, alpha  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Pde6a  phosphodiesterase 6A, cGMP-specific, rod, alpha   Pde6a_predicted  phosphodiesterase 6A, cGMP-specific, rod, alpha (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Pde6a_predicted  phosphodiesterase 6A, cGMP-specific, rod, alpha (predicted)      Symbol and Name status set to approved 70820 APPROVED