PDE6B (phosphodiesterase 6B) - Rat Genome Database

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Gene: PDE6B (phosphodiesterase 6B) Canis lupus familiaris
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Symbol: PDE6B
Name: phosphodiesterase 6B
RGD ID: 12073166
Description: ENCODES a protein that exhibits 3',5'-cyclic-GMP phosphodiesterase activity (inferred); metal ion binding (inferred); INVOLVED IN detection of light stimulus (ortholog); entrainment of circadian clock by photoperiod (ortholog); retina development in camera-type eye (ortholog); PARTICIPATES IN altered visual phototransduction pathway; retinitis pigmentosa pathway; visual phototransduction pathway; ASSOCIATED WITH cone-rod dystrophy 1; retinitis pigmentosa 40; Animal Disease Models (ortholog); FOUND IN photoreceptor outer segment (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: GMP-PDE beta; PDBS; pde6B gene for cGMP phosphodiesterase beta subunit; PDEB; phosphodiesterase 6B, cGMP-specific, rod, beta (congenital stationary night blindness 3, autosomal dominant); RCD-1; rod cGMP phosphodiesterase beta subunit; rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit beta
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1391,746,571 - 91,775,372 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl391,746,571 - 91,775,372 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha394,212,075 - 94,240,253 (-)NCBI
ROS_Cfam_1.0392,746,064 - 92,774,237 (-)NCBI
UMICH_Zoey_3.1391,917,662 - 91,945,844 (-)NCBI
UNSW_CanFamBas_1.0391,972,847 - 92,000,988 (-)NCBI
UU_Cfam_GSD_1.0392,354,937 - 92,383,124 (-)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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
Additional References at PubMed
PMID:1323314   PMID:8387203   PMID:11124530   PMID:24045995  


Genomics

Comparative Map Data
PDE6B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1391,746,571 - 91,775,372 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl391,746,571 - 91,775,372 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha394,212,075 - 94,240,253 (-)NCBI
ROS_Cfam_1.0392,746,064 - 92,774,237 (-)NCBI
UMICH_Zoey_3.1391,917,662 - 91,945,844 (-)NCBI
UNSW_CanFamBas_1.0391,972,847 - 92,000,988 (-)NCBI
UU_Cfam_GSD_1.0392,354,937 - 92,383,124 (-)NCBI
PDE6B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4625,573 - 670,782 (+)EnsemblGRCh38hg38GRCh38
GRCh384587,325 - 670,892 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh374619,362 - 664,571 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364609,373 - 654,571 (+)NCBINCBI36hg18NCBI36
Build 344609,394 - 654,542NCBI
Celera4559,794 - 605,337 (+)NCBI
Cytogenetic Map4p16.3NCBI
HuRef4594,501 - 639,532 (+)NCBIHuRef
CHM1_14619,152 - 664,469 (+)NCBICHM1_1
Pde6b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395108,536,239 - 108,579,609 (+)NCBIGRCm39mm39
GRCm39 Ensembl5108,536,257 - 108,580,263 (+)Ensembl
GRCm385108,388,373 - 108,431,743 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5108,388,391 - 108,432,397 (+)EnsemblGRCm38mm10GRCm38
MGSCv375108,817,392 - 108,860,762 (+)NCBIGRCm37mm9NCBIm37
MGSCv365108,628,742 - 108,672,038 (+)NCBImm8
Celera5105,508,147 - 105,551,677 (+)NCBICelera
Cytogenetic Map5FNCBI
cM Map553.07NCBI
Pde6b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2141,323,310 - 1,366,450 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl141,323,310 - 1,366,450 (-)Ensembl
Rnor_6.0142,328,690 - 2,371,913 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl142,328,750 - 2,371,883 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0142,327,104 - 2,370,811 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4141,871,037 - 1,914,170 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1141,871,039 - 1,914,188 (-)NCBI
Celera141,345,195 - 1,388,316 (-)NCBICelera
Cytogenetic Map14p22NCBI
Pde6b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955514234,972 - 279,420 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955514234,972 - 279,420 (+)NCBIChiLan1.0ChiLan1.0
Pde6b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528568,717,209 - 68,770,451 (-)NCBI
SpeTri2.0NW_00493647722,418,037 - 22,472,251 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDE6B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl880,378 - 110,369 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1880,378 - 111,960 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28131,905 - 148,422 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PDE6B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12748,117,495 - 48,168,727 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2748,118,190 - 48,162,368 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660514,503,685 - 4,551,815 (-)NCBIVero_WHO_p1.0
Pde6b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475526,372,040 - 26,413,464 (-)NCBIHetGla_female_1.0hetGla2


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 reproductive system respiratory system adipose tissue
High
Medium 8
Low 3 6 1 9 3
Below cutoff 5 5 17 4 4 5 3 3 7 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001002934 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ277995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ277997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ277998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ278000 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ278001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ278002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ278003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ278005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000074 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000011 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L13262 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X92839 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Z23014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000026577   ⟹   ENSCAFP00000024683
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl391,746,571 - 91,775,372 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000081347   ⟹   ENSCAFP00000061190
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl391,746,571 - 91,775,372 (-)Ensembl
RefSeq Acc Id: NM_001002934   ⟹   NP_001002934
RefSeq Status: VALIDATED
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1391,746,571 - 91,775,372 (-)NCBI
Dog10K_Boxer_Tasha394,212,075 - 94,240,253 (-)NCBI
ROS_Cfam_1.0392,746,064 - 92,774,237 (-)NCBI
UMICH_Zoey_3.1391,917,662 - 91,945,844 (-)NCBI
UNSW_CanFamBas_1.0391,972,847 - 92,000,988 (-)NCBI
UU_Cfam_GSD_1.0392,354,937 - 92,383,124 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001002934 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA30882 (Get FASTA)   NCBI Sequence Viewer  
  CAA63425 (Get FASTA)   NCBI Sequence Viewer  
  CAA80557 (Get FASTA)   NCBI Sequence Viewer  
  CAB98144 (Get FASTA)   NCBI Sequence Viewer  
  P33726 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001002934   ⟸   NM_001002934
- Sequence:
RefSeq Acc Id: ENSCAFP00000024683   ⟸   ENSCAFT00000026577
RefSeq Acc Id: ENSCAFP00000061190   ⟸   ENSCAFT00000081347


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000016782 Ensembl
NCBI Gene PDE6B ENTREZGENE
UniProt P33726 ENTREZGENE
VGNC ID VGNC:44358 ENTREZGENE