LINC02059 (long intergenic non-protein coding RNA 2059) - Rat Genome Database

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Gene: LINC02059 (long intergenic non-protein coding RNA 2059) Homo sapiens
Analyze
Symbol: LINC02059
Name: long intergenic non-protein coding RNA 2059
RGD ID: 11575077
HGNC Page HGNC:52902
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
GRCh38586,746,818 - 86,749,772 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl586,746,818 - 86,749,777 (+)EnsemblGRCh38hg38GRCh38
GRCh37586,042,635 - 86,045,589 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera581,934,413 - 81,937,367 (+)NCBICelera
Cytogenetic Map5q14.3NCBI
HuRef581,244,698 - 81,247,652 (+)NCBIHuRef
CHM1_1585,475,892 - 85,478,846 (+)NCBICHM1_1
T2T-CHM13v2.0587,229,733 - 87,232,687 (+)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 5q14.3(chr5:85876480-88958682)x1 copy number loss See cases [RCV000051010] Chr5:85876480..88958682 [GRCh38]
Chr5:85172298..88254499 [GRCh37]
Chr5:85208054..88290255 [NCBI36]
Chr5:5q14.3		 pathogenic
GRCh38/hg38 5q14.3(chr5:86658611-87608243)x1 copy number loss See cases [RCV000140403] Chr5:86658611..87608243 [GRCh38]
Chr5:85954428..86904060 [GRCh37]
Chr5:85990184..86939816 [NCBI36]
Chr5:5q14.3		 pathogenic
GRCh38/hg38 5q14.3(chr5:86343721-88779835)x1 copy number loss See cases [RCV000053475] Chr5:86343721..88779835 [GRCh38]
Chr5:85639539..88075652 [GRCh37]
Chr5:85675295..88111408 [NCBI36]
Chr5:5q14.3		 pathogenic
GRCh38/hg38 5q14.3(chr5:86743723-92337264)x1 copy number loss See cases [RCV000053477] Chr5:86743723..92337264 [GRCh38]
Chr5:86039540..91633081 [GRCh37]
Chr5:86075296..91668837 [NCBI36]
Chr5:5q14.3		 pathogenic
GRCh38/hg38 5q13.3-22.1(chr5:74163186-110809453)x3 copy number gain See cases [RCV000051839] Chr5:74163186..110809453 [GRCh38]
Chr5:73459011..110145153 [GRCh37]
Chr5:73494767..110173052 [NCBI36]
Chr5:5q13.3-22.1		 pathogenic
GRCh38/hg38 5q14.3-21.1(chr5:85966055-101335711)x1 copy number loss See cases [RCV000135748] Chr5:85966055..101335711 [GRCh38]
Chr5:85261873..100671415 [GRCh37]
Chr5:85297629..100699314 [NCBI36]
Chr5:5q14.3-21.1		 pathogenic
GRCh38/hg38 5q14.3-22.1(chr5:84603580-111435081)x1 copy number loss See cases [RCV000139656] Chr5:84603580..111435081 [GRCh38]
Chr5:83899398..110770779 [GRCh37]
Chr5:83935154..110798678 [NCBI36]
Chr5:5q14.3-22.1		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:132
Count of miRNA genes:112
Interacting mature miRNAs:116
Transcripts:ENST00000503843, ENST00000506471
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 7
Low 2 2 4 24 1 3 1 342 2 1
Below cutoff 208 112 86 23 219 8 204 54 325 6 92 69 15 47 115

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000503843
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl586,746,859 - 86,749,578 (+)Ensembl
RefSeq Acc Id: ENST00000506471
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl586,746,818 - 86,749,772 (+)Ensembl
RefSeq Acc Id: ENST00000665185
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl586,746,923 - 86,749,772 (+)Ensembl
RefSeq Acc Id: ENST00000670908
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl586,746,824 - 86,749,777 (+)Ensembl
RefSeq Acc Id: NR_105017
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38586,746,818 - 86,749,772 (+)NCBI
CHM1_1585,475,892 - 85,478,846 (+)NCBI
T2T-CHM13v2.0587,229,733 - 87,232,687 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC LINC02059 COSMIC
Ensembl Genes ENSG00000250544 Ensembl
GTEx ENSG00000250544 GTEx
HGNC ID HGNC:52902 ENTREZGENE
Human Proteome Map LINC02059 Human Proteome Map
NCBI Gene LINC02059 ENTREZGENE
RNAcentral URS000075C5A2 RNACentral