IGKV3D-25 (immunoglobulin kappa variable 3D-25 (pseudogene)) - 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: IGKV3D-25 (immunoglobulin kappa variable 3D-25 (pseudogene)) Homo sapiens
Analyze
Symbol: IGKV3D-25
Name: immunoglobulin kappa variable 3D-25 (pseudogene)
RGD ID: 1346075
HGNC Page HGNC:5826
Description:
Type: pseudo (Ensembl: IG_V_pseudogene)
RefSeq Status: VALIDATED
Previously known as: A6; IGKV3D25
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38289,988,500 - 89,990,258 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl289,989,987 - 89,990,221 (+)EnsemblGRCh38hg38GRCh38
GRCh37290,027,310 - 90,029,068 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36289,664,611 - 89,666,369 (+)NCBINCBI36Build 36hg18NCBI36
Celera666,160,810 - 66,162,513 (-)NCBICelera
Cytogenetic Map2p11.2NCBI
CHM1_1289,956,667 - 89,958,425 (+)NCBICHM1_1
T2T-CHM13v2.0290,544,021 - 90,545,779 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:8011175   PMID:11298326  


Genomics

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:104
Count of miRNA genes:103
Interacting mature miRNAs:104
Transcripts:ENST00000519599
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
High
Medium
Low 66 3 7 31 70 1 4 24 31 2
Below cutoff 269 91 51 72 205 9 30 7 12 8 22 118 63 27 15

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000519599
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl289,989,987 - 89,990,221 (+)Ensembl

Additional Information

Database Acc Id Source(s)
COSMIC IGKV3D-25 COSMIC
Ensembl Genes ENSG00000254097 Ensembl
GTEx ENSG00000254097 GTEx
HGNC ID HGNC:5826 ENTREZGENE
Human Proteome Map IGKV3D-25 Human Proteome Map
NCBI Gene 28873 ENTREZGENE
PharmGKB PA35401 PharmGKB


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-07-27 IGKV3D-25  immunoglobulin kappa variable 3D-25 (pseudogene)  IGKV3D-25  immunoglobulin kappa variable 3D-25 pseudogene  Symbol and/or name change 5135510 APPROVED