LOC106509588 (protocadherin gamma-A2-like) - 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   new 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
Gene: LOC106509588 (protocadherin gamma-A2-like) Sus scrofa
Analyze
Symbol: LOC106509588
Name: protocadherin gamma-A2-like
RGD ID: 14244827
Description: ENCODES a protein that exhibits calcium ion binding (inferred); INVOLVED IN cell adhesion (inferred); homophilic cell adhesion via plasma membrane adhesion molecules (inferred); ASSOCIATED WITH autosomal dominant intellectual developmental disorder 31 (ortholog); familial adenomatous polyposis 1 (ortholog); genetic disease (ortholog); FOUND IN membrane (inferred); plasma membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.12142,975,853 - 142,981,025 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22149,175,414 - 149,180,397 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
LOC106509588
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.12142,975,853 - 142,981,025 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22149,175,414 - 149,180,397 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PCDHGA2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385141,338,760 - 141,512,975 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5141,338,760 - 141,512,975 (+)EnsemblGRCh38hg38GRCh38
GRCh375140,718,327 - 140,892,542 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365140,698,538 - 140,872,730 (+)NCBINCBI36Build 36hg18NCBI36
Build 345140,698,537 - 140,701,194NCBI
Celera5136,795,180 - 136,969,282 (+)NCBICelera
Cytogenetic Map5q31.3NCBI
HuRef5135,863,426 - 136,037,386 (+)NCBIHuRef
CHM1_15140,151,562 - 140,325,823 (+)NCBICHM1_1
T2T-CHM13v2.05141,864,406 - 142,038,959 (+)NCBIT2T-CHM13v2.0
Pcdhga2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391837,801,980 - 37,974,923 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1837,802,006 - 37,974,923 (+)EnsemblGRCm39 Ensembl
GRCm381837,668,927 - 37,841,870 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1837,668,953 - 37,841,870 (+)EnsemblGRCm38mm10GRCm38
MGSCv371837,828,759 - 38,001,524 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361837,795,079 - 37,967,844 (+)NCBIMGSCv36mm8
Celera1839,001,624 - 39,185,349 (+)NCBICelera
Cytogenetic Map18B3NCBI
cM Map1819.55NCBI
Pcdhga2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81829,745,189 - 29,919,095 (+)NCBIGRCr8
mRatBN7.21829,493,954 - 29,667,865 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1829,493,954 - 29,667,868 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1829,598,294 - 29,772,190 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01830,360,305 - 30,534,170 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01829,695,630 - 29,869,511 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01830,814,957 - 30,971,113 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01830,509,184 - 30,662,065 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41830,575,106 - 30,754,205 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1829,140,485 - 29,311,954 (+)NCBICelera
Cytogenetic Map18p11NCBI

Variants

.
Variants in LOC106509588
209 total Variants

Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_013995277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AEMK02000012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: XM_013995277   ⟹   XP_013850731
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.12142,975,853 - 142,981,025 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013850731 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00065036170.1
Reference Protein Sequences
RefSeq Acc Id: XP_013850731   ⟸   XM_013995277
- UniProtKB: A0A8D1ZEQ4 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
Cadherin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00065060624 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00065083031.1 UniProtKB/TrEMBL
Gene3D-CATH Cadherins UniProtKB/TrEMBL
InterPro Cadherin-like_dom UniProtKB/TrEMBL
  Cadherin-like_sf UniProtKB/TrEMBL
  Cadherin_C UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  Cadherin_N UniProtKB/TrEMBL
NCBI Gene LOC106509588 ENTREZGENE
PANTHER CADHERIN-87A UniProtKB/TrEMBL
  PROTOCADHERIN GAMMA-A2 UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
  Cadherin_2 UniProtKB/TrEMBL
  Cadherin_C_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 A0A8D1ZEQ4 ENTREZGENE, UniProtKB/TrEMBL