LINC01964 (long intergenic non-protein coding RNA 1964) - Rat Genome Database

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Gene: LINC01964 (long intergenic non-protein coding RNA 1964) Homo sapiens
Analyze
Symbol: LINC01964
Name: long intergenic non-protein coding RNA 1964
RGD ID: 11568964
HGNC Page HGNC:52789
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38285,064,110 - 85,067,347 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl285,061,213 - 85,067,347 (-)EnsemblGRCh38hg38GRCh38
GRCh37285,291,233 - 85,294,470 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map2p11.2NCBI
HuRef285,188,001 - 85,191,237 (-)NCBIHuRef
CHM1_1285,221,005 - 85,224,241 (-)NCBICHM1_1
T2T-CHM13v2.0285,066,004 - 85,069,240 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:12477932  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 2p11.2(chr2:85014686-88826619)x1 copy number loss See cases [RCV000141948] Chr2:85014686..88826619 [GRCh38]
Chr2:85241809..89126132 [GRCh37]
Chr2:85095320..88907247 [NCBI36]
Chr2:2p11.2		 pathogenic
GRCh38/hg38 2p12-11.2(chr2:77025216-90282666)x3 copy number gain See cases [RCV000134786] Chr2:77025216..90282666 [GRCh38]
Chr2:77252342..91619262 [GRCh37]
Chr2:77105850..90982989 [NCBI36]
Chr2:2p12-11.2		 pathogenic
GRCh38/hg38 2p25.1-11.2(chr2:7495123-87705899)x3 copy number gain See cases [RCV000141494] Chr2:7495123..87705899 [GRCh38]
Chr2:7635254..88005418 [GRCh37]
Chr2:7552705..87786533 [NCBI36]
Chr2:2p25.1-11.2		 benign
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:223
Count of miRNA genes:208
Interacting mature miRNAs:213
Transcripts:ENST00000567718
Prediction methods:Microtar, 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 336 5
Below cutoff 552 660 480 113 439 35 1153 411 1133 41 339 609 78 368 739

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000567718
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl285,064,108 - 85,067,347 (-)Ensembl
RefSeq Acc Id: ENST00000650835
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl285,061,213 - 85,067,347 (-)Ensembl
RefSeq Acc Id: NR_146453
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38285,064,110 - 85,067,347 (-)NCBI
T2T-CHM13v2.0285,066,004 - 85,069,240 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC LINC01964 COSMIC
Ensembl Genes ENSG00000260840 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000567718 ENTREZGENE
GTEx ENSG00000260840 GTEx
HGNC ID HGNC:52789 ENTREZGENE
Human Proteome Map LINC01964 Human Proteome Map
NCBI Gene LINC01964 ENTREZGENE
RNAcentral URS0000BC45D9 RNACentral