Pcdh17 (protocadherin 17) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Pcdh17 (protocadherin 17) Heterocephalus glaber
Analyze
Symbol: Pcdh17
Name: protocadherin 17
RGD ID: 18913226
Description: ENCODES a protein that exhibits calcium ion binding (inferred); INVOLVED IN adult behavior (ortholog); negative regulation of synaptic transmission (ortholog); presynaptic active zone assembly (ortholog); ASSOCIATED WITH chromosome 13q14 deletion syndrome (ortholog); FOUND IN GABA-ergic synapse (ortholog); glutamatergic synapse (ortholog); postsynaptic membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Protocadherin-17
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_00462474818,958,276 - 19,054,381 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474818,958,250 - 19,056,278 (+)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

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:21993625   PMID:22301074  


Genomics

Comparative Map Data
Pcdh17
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474818,958,276 - 19,054,381 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474818,958,250 - 19,056,278 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
PCDH17
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381357,630,108 - 57,729,311 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1357,631,744 - 57,729,311 (+)EnsemblGRCh38hg38GRCh38
GRCh371358,205,878 - 58,303,445 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361357,103,790 - 57,201,066 (+)NCBINCBI36Build 36hg18NCBI36
Build 341357,103,944 - 57,198,155NCBI
Celera1339,160,322 - 39,257,584 (+)NCBICelera
Cytogenetic Map13q21.1NCBI
HuRef1338,887,937 - 38,985,207 (+)NCBIHuRef
CHM1_11358,173,338 - 58,270,626 (+)NCBICHM1_1
T2T-CHM13v2.01356,846,361 - 56,945,624 (+)NCBIT2T-CHM13v2.0
Pcdh17
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391484,680,626 - 84,775,005 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1484,681,003 - 84,776,442 (+)EnsemblGRCm39 Ensembl
GRCm381484,443,563 - 84,537,565 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1484,443,563 - 84,539,002 (+)EnsemblGRCm38mm10GRCm38
MGSCv371484,843,370 - 84,936,867 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361483,253,698 - 83,342,225 (+)NCBIMGSCv36mm8
Celera1481,944,000 - 82,037,467 (+)NCBICelera
Cytogenetic Map14D3NCBI
cM Map1443.54NCBI
Pcdh17
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81566,631,549 - 66,725,007 (+)NCBIGRCr8
mRatBN7.21560,222,088 - 60,316,172 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1560,222,004 - 60,313,999 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1564,338,162 - 64,427,126 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01565,451,249 - 65,540,381 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01562,315,212 - 62,404,183 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01567,555,835 - 67,647,990 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1567,555,835 - 67,645,088 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01571,182,073 - 71,273,939 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41566,391,901 - 66,482,530 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11566,405,272 - 66,600,882 (+)NCBI
Celera1559,754,674 - 59,843,809 (+)NCBICelera
Cytogenetic Map15q12NCBI
Pcdh17
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540446,791,148 - 46,886,918 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540446,795,303 - 46,886,918 (-)NCBIChiLan1.0ChiLan1.0
PCDH17
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21459,109,655 - 59,208,933 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11357,739,260 - 57,838,536 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01338,801,514 - 38,900,811 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11357,532,850 - 57,631,725 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1357,532,850 - 57,631,725 (+)Ensemblpanpan1.1panPan2
PCDH17
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12213,865,138 - 13,962,110 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2213,865,900 - 13,958,405 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2213,835,266 - 13,930,999 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02214,087,985 - 14,184,578 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2214,088,068 - 14,180,869 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12213,793,476 - 13,885,812 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02213,818,958 - 13,910,969 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02213,837,878 - 13,933,995 (+)NCBIUU_Cfam_GSD_1.0
Pcdh17
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945147,355,309 - 147,452,093 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936820765,100 - 861,667 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936820764,016 - 860,325 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCDH17
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1130,511,275 - 30,611,727 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11130,510,779 - 30,611,732 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21131,998,284 - 32,036,732 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PCDH17
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1335,423,998 - 35,518,776 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl335,426,230 - 35,519,023 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660578,229,314 - 8,327,911 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000009654   ⟹   ENSHGLP00000009547
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462474818,958,276 - 19,054,381 (+)Ensembl
Ensembl Acc Id: ENSHGLT00000009655   ⟹   ENSHGLP00000009548
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462474818,960,670 - 19,052,231 (+)Ensembl
RefSeq Acc Id: XM_021257921   ⟹   XP_021113580
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474818,960,627 - 19,056,278 (+)NCBI
RefSeq Acc Id: XM_021257922   ⟹   XP_021113581
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474818,958,253 - 19,056,278 (+)NCBI
RefSeq Acc Id: XM_021257923   ⟹   XP_021113582
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474818,958,258 - 19,056,278 (+)NCBI
RefSeq Acc Id: XM_021257924   ⟹   XP_021113583
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474818,958,257 - 19,056,278 (+)NCBI
RefSeq Acc Id: XM_021257925   ⟹   XP_021113584
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474818,958,256 - 19,056,278 (+)NCBI
RefSeq Acc Id: XM_021257926   ⟹   XP_021113585
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474818,958,250 - 19,056,278 (+)NCBI
RefSeq Acc Id: XM_021257927   ⟹   XP_021113586
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474818,958,255 - 19,056,278 (+)NCBI
RefSeq Acc Id: XP_021113585   ⟸   XM_021257926
- Peptide Label: isoform X6
- UniProtKB: G5AQ94 (UniProtKB/TrEMBL),   A0AAX6SYL7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021113581   ⟸   XM_021257922
- Peptide Label: isoform X2
- UniProtKB: G5AQ94 (UniProtKB/TrEMBL),   A0AAX6SV02 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021113586   ⟸   XM_021257927
- Peptide Label: isoform X7
- UniProtKB: G5AQ94 (UniProtKB/TrEMBL),   A0AAX6SZ44 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021113584   ⟸   XM_021257925
- Peptide Label: isoform X5
- UniProtKB: G5AQ94 (UniProtKB/TrEMBL),   A0AAX6SY96 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021113583   ⟸   XM_021257924
- Peptide Label: isoform X4
- UniProtKB: G5AQ94 (UniProtKB/TrEMBL),   A0AAX6SXT9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021113582   ⟸   XM_021257923
- Peptide Label: isoform X3
- UniProtKB: G5AQ94 (UniProtKB/TrEMBL),   A0AAX6SW79 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021113580   ⟸   XM_021257921
- Peptide Label: isoform X1
- UniProtKB: G5AQ94 (UniProtKB/TrEMBL),   A0AAX6SWM6 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000009547   ⟸   ENSHGLT00000009654
Ensembl Acc Id: ENSHGLP00000009548   ⟸   ENSHGLT00000009655


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000006849 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000009654 ENTREZGENE
  ENSHGLT00000009655 ENTREZGENE
Gene3D-CATH Cadherins UniProtKB/TrEMBL
InterPro Cadherin-like_dom UniProtKB/TrEMBL
  Cadherin-like_sf UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  Cadherin_N UniProtKB/TrEMBL
  Protocadherin/Cadherin-CA UniProtKB/TrEMBL
NCBI Gene Pcdh17 ENTREZGENE
PANTHER CADHERIN-87A UniProtKB/TrEMBL
  PROTOCADHERIN-17 UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
  Cadherin_2 UniProtKB/TrEMBL
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/TrEMBL
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP Cadherin-like UniProtKB/TrEMBL
UniProt A0AAX6SV02 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SW79 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SWM6 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SXT9 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SY96 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SYL7 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SZ44 ENTREZGENE, UniProtKB/TrEMBL
  G5AQ94 ENTREZGENE, UniProtKB/TrEMBL