Pde6d (phosphodiesterase 6D) - Rat Genome Database

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Gene: Pde6d (phosphodiesterase 6D) Heterocephalus glaber
Analyze
Symbol: Pde6d
Name: phosphodiesterase 6D
RGD ID: 18914080
Description: ENCODES a protein that exhibits GTPase inhibitor activity (ortholog); small GTPase binding (ortholog); INVOLVED IN sensory perception of light stimulus (inferred); visual perception (inferred); ASSOCIATED WITH genetic disease (ortholog); Joubert syndrome 22 (ortholog); Perlman syndrome (ortholog); FOUND IN cytoplasm (inferred); cytoplasmic vesicle (inferred); cytoplasmic vesicle membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
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_0046248434,741,220 - 4,776,381 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248434,741,211 - 4,776,404 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Pde6d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248434,741,220 - 4,776,381 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248434,741,211 - 4,776,404 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
PDE6D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382231,732,433 - 231,781,282 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2231,732,433 - 231,786,272 (-)EnsemblGRCh38hg38GRCh38
GRCh372232,597,143 - 232,645,992 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362232,305,391 - 232,354,218 (-)NCBINCBI36Build 36hg18NCBI36
Build 342232,422,651 - 232,471,479NCBI
Celera2226,373,664 - 226,422,490 (-)NCBICelera
Cytogenetic Map2q37.1NCBI
HuRef2224,440,043 - 224,488,796 (-)NCBIHuRef
CHM1_12232,602,970 - 232,651,791 (-)NCBICHM1_1
T2T-CHM13v2.02232,217,003 - 232,265,853 (-)NCBIT2T-CHM13v2.0
Pde6d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39186,470,735 - 86,510,260 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl186,470,716 - 86,510,351 (-)EnsemblGRCm39 Ensembl
GRCm38186,543,012 - 86,582,785 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl186,542,994 - 86,582,629 (-)EnsemblGRCm38mm10GRCm38
MGSCv37188,439,590 - 88,479,076 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36188,374,186 - 88,413,672 (-)NCBIMGSCv36mm8
Celera189,512,736 - 89,552,068 (-)NCBICelera
Cytogenetic Map1C5NCBI
cM Map143.96NCBI
Pde6d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8994,640,932 - 94,685,918 (-)NCBIGRCr8
mRatBN7.2987,192,989 - 87,237,979 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl987,192,983 - 87,237,969 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx995,609,761 - 95,654,513 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09100,738,019 - 100,782,702 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0999,121,303 - 99,166,270 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0993,562,099 - 93,607,061 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl993,562,095 - 93,607,087 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0993,290,035 - 93,335,020 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4985,307,907 - 85,352,836 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1985,491,326 - 85,536,271 (-)NCBI
Celera984,608,306 - 84,653,222 (-)NCBICelera
Cytogenetic Map9q35NCBI
Pde6d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554533,992,160 - 4,024,695 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554533,992,160 - 4,024,695 (+)NCBIChiLan1.0ChiLan1.0
PDE6D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213134,357,185 - 134,405,908 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B134,372,155 - 134,420,873 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B118,984,666 - 119,033,525 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B237,772,529 - 237,821,044 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B237,772,529 - 237,821,044 (-)Ensemblpanpan1.1panPan2
PDE6D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12543,583,271 - 43,636,682 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2543,583,901 - 43,636,790 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2544,077,007 - 44,130,324 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02543,839,352 - 43,893,418 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2543,837,383 - 43,893,526 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12543,767,671 - 43,820,847 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02543,611,021 - 43,664,227 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02543,766,160 - 43,819,583 (-)NCBIUU_Cfam_GSD_1.0
Pde6d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303185,698,865 - 185,753,200 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365255,185,898 - 5,243,081 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365255,186,501 - 5,240,859 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDE6D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15132,375,743 - 132,426,683 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115132,376,117 - 132,426,678 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215146,142,941 - 146,193,486 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PDE6D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110117,747,149 - 117,809,882 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10117,746,686 - 117,809,824 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604081,629,156 - 81,690,453 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000002682   ⟹   ENSHGLP00000002630
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046248434,741,220 - 4,776,381 (-)Ensembl
RefSeq Acc Id: XM_004868054   ⟹   XP_004868111
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248434,741,211 - 4,776,404 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004868111 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000002630
GenBank Protein JAN98138 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_004868111   ⟸   XM_004868054
- UniProtKB: A0A0P6J443 (UniProtKB/TrEMBL),   G5ASV0 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSHGLP00000002630   ⟸   ENSHGLT00000002682


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000001979 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000002682 ENTREZGENE
Gene3D-CATH 2.70.50.40 UniProtKB/TrEMBL
InterPro Ig_E-set UniProtKB/TrEMBL
  PDED_dom UniProtKB/TrEMBL
  PDED_dom_sf UniProtKB/TrEMBL
  Rhodop-sen_GMP-Pdiesterase_dsu UniProtKB/TrEMBL
KEGG Report hgl:101702746 UniProtKB/TrEMBL
NCBI Gene Pde6d ENTREZGENE
PANTHER RETINAL ROD RHODOPSIN-SENSITIVE CGMP 3',5'-CYCLIC PHOSPHODIESTERASE DELTA-SUBUNIT UniProtKB/TrEMBL
  RETINAL ROD RHODOPSIN-SENSITIVE CGMP 3',5'-CYCLIC PHOSPHODIESTERASE SUBUNIT DELTA UniProtKB/TrEMBL
Pfam GMP_PDE_delta UniProtKB/TrEMBL
PIRSF GMP-Pdiesterase_delta UniProtKB/TrEMBL
Superfamily-SCOP SSF81296 UniProtKB/TrEMBL
UniProt A0A0P6J443 ENTREZGENE, UniProtKB/TrEMBL
  G5ASV0 ENTREZGENE, UniProtKB/TrEMBL