CSPG4P13 (chondroitin sulfate proteoglycan 4 pseudogene 13) - 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: CSPG4P13 (chondroitin sulfate proteoglycan 4 pseudogene 13) Homo sapiens
Analyze
Symbol: CSPG4P13
Name: chondroitin sulfate proteoglycan 4 pseudogene 13
RGD ID: 7367149
HGNC Page HGNC:49195
Description:
Type: pseudo (Ensembl: transcribed_unprocessed_pseudogene)
RefSeq Status: INFERRED
Related Functional Gene: CSPG4  
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381577,878,638 - 77,904,671 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1577,894,684 - 77,904,674 (+)EnsemblGRCh38hg38GRCh38
GRCh371578,170,980 - 78,197,013 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera1555,106,617 - 55,133,155 (+)NCBICelera
Cytogenetic Map15q24.3NCBI
HuRef1554,927,937 - 54,953,964 (+)NCBIHuRef
CHM1_11578,288,865 - 78,314,887 (+)NCBICHM1_1
T2T-CHM13v2.01575,740,865 - 75,766,894 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Genomics

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1100
Count of miRNA genes:658
Interacting mature miRNAs:760
Transcripts:ENST00000565545, ENST00000567704, ENST00000594231
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 renal system reproductive system respiratory system sensory system adipose tissue appendage entire extraembryonic component
High
Medium 128 6 122 2 122
Low 629 1405 264 7 118 2 1986 980 481 72 495 439 7 752 1416 1
Below cutoff 1656 897 953 321 870 168 1998 1184 2867 218 786 931 153 451 1240 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000565545
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1577,901,661 - 77,904,361 (+)Ensembl
RefSeq Acc Id: ENST00000567704
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1577,894,684 - 77,904,674 (+)Ensembl

Additional Information

Database Acc Id Source(s)
COSMIC CSPG4P13 COSMIC
Ensembl Genes ENSG00000260139 Ensembl, ENTREZGENE
GTEx ENSG00000260139 GTEx
HGNC ID HGNC:49195 ENTREZGENE
Human Proteome Map CSPG4P13 Human Proteome Map
NCBI Gene CSPG4P13 ENTREZGENE