LINC01527 (long intergenic non-protein coding RNA 1527) - 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: LINC01527 (long intergenic non-protein coding RNA 1527) Homo sapiens
Analyze
Symbol: LINC01527
Name: long intergenic non-protein coding RNA 1527
RGD ID: 9479115
HGNC Page HGNC:51266
Description: INTERACTS WITH 2-hydroxypropanoic acid; formaldehyde; rac-lactic acid
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: lnc-SPRR2D-1
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381152,929,881 - 152,949,210 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1152,930,040 - 152,949,210 (-)EnsemblGRCh38hg38GRCh38
GRCh371152,902,516 - 152,921,686 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map1q21.3NCBI
HuRef1124,265,720 - 124,284,911 (-)NCBIHuRef
CHM1_11154,298,480 - 154,317,528 (-)NCBICHM1_1
T2T-CHM13v2.01152,066,561 - 152,085,851 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:25045670   PMID:27596299  


Genomics

Variants

.
Variants in LINC01527
1 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 1q21.2-25.2(chr1:149854269-180267197)x3 copy number gain See cases [RCV000143515] Chr1:149854269..180267197 [GRCh38]
Chr1:149825831..180236332 [GRCh37]
Chr1:148092455..178502955 [NCBI36]
Chr1:1q21.2-25.2		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:80
Count of miRNA genes:79
Interacting mature miRNAs:80
Transcripts:ENST00000419578
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 1 1 1 1
Low 18 1 37 12 77 13 71 18 22 45 49 116 1 2
Below cutoff 218 261 139 80 329 50 1100 118 255 114 419 283 40 58 533 3

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000419578
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1152,930,040 - 152,949,210 (-)Ensembl
RefSeq Acc Id: NR_183723
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381152,929,881 - 152,949,210 (-)NCBI
T2T-CHM13v2.01152,066,561 - 152,085,851 (-)NCBI

Additional Information

Database Acc Id Source(s)
COSMIC LINC01527 COSMIC
Ensembl Genes ENSG00000224308 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000419578 ENTREZGENE
GTEx ENSG00000224308 GTEx
HGNC ID HGNC:51266 ENTREZGENE
Human Proteome Map LINC01527 Human Proteome Map
NCBI Gene LINC01527 ENTREZGENE
RNAcentral URS00026A22AD RNACentral