SPTLC1P4 (serine palmitoyltransferase long chain base subunit 1 pseudogene 4) - 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: SPTLC1P4 (serine palmitoyltransferase long chain base subunit 1 pseudogene 4) Homo sapiens
Analyze
Symbol: SPTLC1P4
Name: serine palmitoyltransferase long chain base subunit 1 pseudogene 4
RGD ID: 6480936
HGNC Page HGNC:39671
Description:
Type: pseudo (Ensembl: processed_pseudogene)
RefSeq Status: INFERRED
Related Functional Gene: SPTLC1  
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381152,077,937 - 152,078,250 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1152,077,952 - 152,078,211 (+)EnsemblGRCh38hg38GRCh38
GRCh371152,050,413 - 152,050,726 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map1q21.3NCBI
HuRef1123,428,324 - 123,428,585 (+)NCBIHuRef
CHM1_11153,445,759 - 153,446,020 (+)NCBICHM1_1
T2T-CHM13v2.01151,201,483 - 151,201,796 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Genomics

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:286
Count of miRNA genes:275
Interacting mature miRNAs:281
Transcripts:ENST00000435997
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 3 1
Low 51 8 23 11 41 12 127 12 68 25 417 99 2 12 79
Below cutoff 293 216 204 67 235 42 779 160 411 123 185 340 29 222 430 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000435997
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1152,077,952 - 152,078,211 (+)Ensembl

Additional Information

Database Acc Id Source(s)
COSMIC SPTLC1P4 COSMIC
Ensembl Genes ENSG00000232678 Ensembl, ENTREZGENE
GTEx ENSG00000232678 GTEx
HGNC ID HGNC:39671 ENTREZGENE
Human Proteome Map SPTLC1P4 Human Proteome Map
NCBI Gene SPTLC1P4 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-19 SPTLC1P4  serine palmitoyltransferase long chain base subunit 1 pseudogene 4    serine palmitoyltransferase, long chain base subunit 1 pseudogene 4  Symbol and/or name change 5135510 APPROVED