Pde6h (phosphodiesterase 6H) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Pde6h (phosphodiesterase 6H) Heterocephalus glaber
Analyze
Symbol: Pde6h
Name: phosphodiesterase 6H
RGD ID: 18936277
Description: ENCODES a protein that exhibits 3',5'-cyclic-nucleotide phosphodiesterase activity (inferred); cGMP binding (inferred); hydrolase activity (inferred); INVOLVED IN positive regulation of epidermal growth factor receptor signaling pathway (ortholog); positive regulation of G protein-coupled receptor signaling pathway (ortholog); positive regulation of MAPK cascade (ortholog); PARTICIPATES IN visual phototransduction pathway; ASSOCIATED WITH autosomal dominant intellectual developmental disorder 6 (ortholog); color blindness (ortholog); cone-rod dystrophy 14 (ortholog); FOUND IN photoreceptor outer segment membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: retinal cone rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit gamma
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475223,051,752 - 23,055,103 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475223,051,486 - 23,055,128 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pde6hNaked Mole-Ratautosomal dominant intellectual developmental disorder 6  ISORGD:13532418554872ClinVar Annotator: match by term: Intellectual disability, autosomal dominant 6ClinVarPMID:28492532
Pde6hNaked Mole-Ratcone-rod dystrophy 14  ISORGD:13532418554872ClinVar Annotator: match by term: Cone dystrophy 3ClinVar 
Pde6hNaked Mole-Ratfundus dystrophy  ISORGD:13532418554872ClinVar Annotator: match by term: Retinal dystrophyClinVarPMID:22901948|PMID:25741868|PMID:27472364|PMID:27479814|PMID:28492532|PMID:31429209|PMID:31589614|PMID:31964843|PMID:34315337|PMID:35567543
Pde6hNaked Mole-Ratretinal cone dystrophy 3A  ISORGD:13532418554872ClinVar Annotator: match by term: Retinal cone dystrophy 3AClinVarPMID:15629837|PMID:22901948|PMID:25741868|PMID:27472364|PMID:27479814|PMID:28492532|PMID:31429209|PMID:31589614|PMID:31964843|PMID:34315337|PMID:35567543
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pde6hNaked Mole-Ratcolor blindness  ISORGD:13532419068941CTD Direct Evidence: marker/mechanismCTDPMID:25739440
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pde6hNaked Mole-Ratretinal cone dystrophy 3A  ISORGD:13532417240710 OMIM 


Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pde6hNaked Mole-Ratpositive regulation of epidermal growth factor receptor signaling pathway acts_upstream_of_or_withinISORGD:15519559068941 PMID:11502744MGIPMID:11502744
Pde6hNaked Mole-Ratpositive regulation of epidermal growth factor receptor signaling pathway involved_inIEAPANTHER:PTN000252188150520179 TreeGrafterGO_REF:0000118
Pde6hNaked Mole-Ratpositive regulation of G protein-coupled receptor signaling pathway involved_inIEAPANTHER:PTN000252188150520179 TreeGrafterGO_REF:0000118
Pde6hNaked Mole-Ratpositive regulation of G protein-coupled receptor signaling pathway acts_upstream_of_or_withinISORGD:15519559068941 PMID:11502744MGIPMID:11502744
Pde6hNaked Mole-Ratpositive regulation of MAPK cascade acts_upstream_of_or_withinISORGD:15519559068941 PMID:11502744MGIPMID:11502744
Pde6hNaked Mole-Ratvisual perception involved_inIEAUniProtKB-KW:KW-0844150520179 UniProtGO_REF:0000043
Pde6hNaked Mole-Ratvisual perception involved_inIEAInterPro:IPR006952|InterPro:IPR037030150520179 InterProGO_REF:0000002

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pde6hNaked Mole-Ratphotoreceptor outer segment membrane located_inIEAPANTHER:PTN000252188150520179 TreeGrafterGO_REF:0000118

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pde6hNaked Mole-Rat3',5'-cyclic-nucleotide phosphodiesterase activity enablesIEAInterPro:IPR006952|InterPro:IPR037030150520179 InterProGO_REF:0000002
Pde6hNaked Mole-RatcGMP binding enablesIEAInterPro:IPR006952|InterPro:IPR037030150520179 InterProGO_REF:0000002
Pde6hNaked Mole-Rathydrolase activity enablesIEAUniProtKB-KW:KW-0378150520179 UniProtGO_REF:0000043
Pde6hNaked Mole-Ratprotein binding enablesISOUniProtKB:Q14019|UniProtKB:Q6NUP59068941 PMID:25416956IntActPMID:25416956
Pde6hNaked Mole-Ratprotein binding enablesISOUniProtKB:O43741|UniProtKB:P784249068941 PMID:32296183IntActPMID:32296183
Pde6hNaked Mole-Ratprotein binding enablesISOUniProtKB:P22607|UniProtKB:P28329-3|UniProtKB:Q9UMX09068941 PMID:32814053IntActPMID:32814053

RGD Manual Annotations


  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pde6hNaked Mole-Ratvisual phototransduction pathway   ISORGD:13532419068941 RGDPMID:15224133|REF_RGD_ID:6893540
PMID:22301074   PMID:30032202  



Pde6h
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475223,051,752 - 23,055,103 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475223,051,486 - 23,055,128 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
PDE6H
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381214,973,042 - 14,981,865 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1214,973,042 - 14,981,865 (+)EnsemblGRCh38hg38GRCh38
GRCh371215,125,976 - 15,134,799 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361215,017,245 - 15,026,066 (+)NCBINCBI36Build 36hg18NCBI36
Build 341215,017,244 - 15,026,066NCBI
Celera1220,270,954 - 20,279,795 (+)NCBICelera
Cytogenetic Map12p12.3NCBI
HuRef1214,895,337 - 14,904,178 (+)NCBIHuRef
CHM1_11215,092,057 - 15,100,898 (+)NCBICHM1_1
T2T-CHM13v2.01214,850,375 - 14,859,197 (+)NCBIT2T-CHM13v2.0
Pde6h
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396136,929,216 - 136,940,483 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6136,900,830 - 136,945,863 (+)EnsemblGRCm39 Ensembl
GRCm386136,952,218 - 136,963,485 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6136,923,832 - 136,968,865 (+)EnsemblGRCm38mm10GRCm38
MGSCv376136,903,044 - 136,912,004 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366136,918,719 - 136,927,678 (+)NCBIMGSCv36mm8
Celera6139,997,648 - 140,006,582 (+)NCBICelera
Cytogenetic Map6G1NCBI
cM Map666.72NCBI
Pde6h
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84171,588,896 - 171,604,142 (+)NCBIGRCr8
mRatBN7.24169,857,793 - 169,872,969 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4169,857,812 - 169,872,969 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4176,164,525 - 176,169,238 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04171,944,657 - 171,949,411 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04170,570,202 - 170,574,915 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04170,947,723 - 170,963,046 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4170,958,196 - 170,963,046 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04235,204,371 - 235,219,664 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44174,009,860 - 174,014,405 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14174,254,983 - 174,259,529 (+)NCBI
Celera4158,449,142 - 158,453,876 (+)NCBICelera
Cytogenetic Map4q43NCBI
Pde6h
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541311,703,378 - 11,712,075 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541311,654,252 - 11,711,799 (+)NCBIChiLan1.0ChiLan1.0
PDE6H
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21020,254,398 - 20,430,243 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11220,285,815 - 20,427,004 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01214,890,192 - 14,984,542 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11215,372,413 - 15,381,249 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1215,372,413 - 15,381,249 (+)Ensemblpanpan1.1panPan2
PDE6H
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12731,640,731 - 31,664,494 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2731,640,737 - 31,664,401 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2714,784,654 - 14,808,356 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02731,947,405 - 31,970,923 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2731,947,411 - 31,970,880 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12731,836,788 - 31,860,326 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02731,795,045 - 31,818,763 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02714,516,903 - 14,540,640 (+)NCBIUU_Cfam_GSD_1.0
Pde6h
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494592,778,204 - 92,786,504 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365872,506,585 - 2,514,157 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365872,505,755 - 2,514,103 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDE6H
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl557,556,149 - 57,594,423 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1557,555,448 - 57,582,324 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2560,944,506 - 60,978,007 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PDE6H
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11114,869,864 - 14,880,307 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1114,870,498 - 14,880,324 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606920,430,389 - 20,439,864 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

.
RefSeq Transcripts XM_004845826 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AHKG01033203 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSHGLT00000023280   ⟹   ENSHGLP00000023065
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462475223,051,752 - 23,055,103 (-)Ensembl
Ensembl Acc Id: ENSHGLT00000023281   ⟹   ENSHGLP00000023066
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462475223,051,777 - 23,055,103 (-)Ensembl
RefSeq Acc Id: XM_004845826   ⟹   XP_004845883
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462475223,051,486 - 23,055,128 (-)NCBI
Protein RefSeqs XP_004845883 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000023065
RefSeq Acc Id: XP_004845883   ⟸   XM_004845826
- UniProtKB: A0AAX6P8K2 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000023066   ⟸   ENSHGLT00000023281
Ensembl Acc Id: ENSHGLP00000023065   ⟸   ENSHGLT00000023280



1 to 11 of 11 rows
Database
Acc Id
Source(s)
Ensembl Genes ENSHGLG00000016447 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000023280 ENTREZGENE
Gene3D-CATH Retinal cGMP phosphodiesterase, gamma subunit UniProtKB/TrEMBL
InterPro PDE6_gamma UniProtKB/TrEMBL
  PDE6_gamma_sf UniProtKB/TrEMBL
NCBI Gene Pde6h ENTREZGENE
PANTHER RETINAL CONE RHODOPSIN-SENSITIVE CGMP 3',5'-CYCLIC PHOSPHODIESTERASE GAMMA-SUBUNIT-RELATED UniProtKB/TrEMBL
  RETINAL CONE RHODOPSIN-SENSITIVE CGMP 3',5'-CYCLIC PHOSPHODIESTERASE SUBUNIT GAMMA UniProtKB/TrEMBL
Pfam PDE6_gamma UniProtKB/TrEMBL
PIRSF 35-cGMP_Pdiase_g UniProtKB/TrEMBL
UniProt A0AAX6P8K2 ENTREZGENE, UniProtKB/TrEMBL
1 to 11 of 11 rows