LINC02617 (long intergenic non-protein coding RNA 2617) - Rat Genome Database

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Gene: LINC02617 (long intergenic non-protein coding RNA 2617) Homo sapiens
Analyze
Symbol: LINC02617
Name: long intergenic non-protein coding RNA 2617
RGD ID: 14904867
HGNC Page HGNC:54089
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
GRCh381210,332,860 - 10,338,292 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1210,332,861 - 10,338,292 (-)EnsemblGRCh38hg38GRCh38
GRCh371210,485,459 - 10,490,891 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map12p13.2NCBI
T2T-CHM13v2.01210,219,675 - 10,225,108 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:16344560   PMID:25921151  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 12p13.33-12.1(chr12:80412-25470329)x3 copy number gain See cases [RCV000053662] Chr12:80412..25470329 [GRCh38]
Chr12:282465..25623263 [GRCh37]
Chr12:59839..25514530 [NCBI36]
Chr12:12p13.33-12.1		 pathogenic
GRCh38/hg38 12p13.33-11.1(chr12:121255-34603274)x3 copy number gain See cases [RCV000136611] Chr12:121255..34603274 [GRCh38]
Chr12:282465..34756209 [GRCh37]
Chr12:100682..34647476 [NCBI36]
Chr12:12p13.33-11.1		 pathogenic
GRCh38/hg38 12p13.33-12.2(chr12:1258274-20657577)x3 copy number gain See cases [RCV000141905] Chr12:1258274..20657577 [GRCh38]
Chr12:1367440..20810511 [GRCh37]
Chr12:1237701..20701778 [NCBI36]
Chr12:12p13.33-12.2		 pathogenic
GRCh38/hg38 12p13.33-11.22(chr12:121055-28415184)x1 copy number loss See cases [RCV000052776] Chr12:121055..28415184 [GRCh38]
Chr12:282465..28568117 [GRCh37]
Chr12:100482..28459384 [NCBI36]
Chr12:12p13.33-11.22		 pathogenic
GRCh38/hg38 12p13.2(chr12:10273008-10633696)x1 copy number loss See cases [RCV000135370] Chr12:10273008..10633696 [GRCh38]
Chr12:10425607..10786295 [GRCh37]
Chr12:10316874..10677562 [NCBI36]
Chr12:12p13.2		 uncertain significance
GRCh38/hg38 12p13.33-11.1(chr12:77187-34380176)x3 copy number gain See cases [RCV000053660] Chr12:77187..34380176 [GRCh38]
Chr12:282465..34533111 [GRCh37]
Chr12:56614..34424378 [NCBI36]
Chr12:12p13.33-11.1		 pathogenic
GRCh38/hg38 12p13.33-q24.33(chr12:121271-133196807)x3 copy number gain See cases [RCV000139555] Chr12:121271..133196807 [GRCh38]
Chr12:282465..133773393 [GRCh37]
Chr12:100698..132283466 [NCBI36]
Chr12:12p13.33-q24.33		 pathogenic
GRCh38/hg38 12p13.33-12.3(chr12:2871741-14987348)x3 copy number gain See cases [RCV000137694] Chr12:2871741..14987348 [GRCh38]
Chr12:2980907..15140282 [GRCh37]
Chr12:2851168..15031549 [NCBI36]
Chr12:12p13.33-12.3		 pathogenic
GRCh38/hg38 12p13.33-11.1(chr12:64620-34682902)x4 copy number gain See cases [RCV000142149] Chr12:64620..34682902 [GRCh38]
Chr12:173786..34835837 [GRCh37]
Chr12:44047..34727104 [NCBI36]
Chr12:12p13.33-11.1		 pathogenic
GRCh38/hg38 12p13.33-11.1(chr12:54427-34608071)x4 copy number gain See cases [RCV000139787] Chr12:54427..34608071 [GRCh38]
Chr12:282465..34761006 [GRCh37]
Chr12:33854..34652273 [NCBI36]
Chr12:12p13.33-11.1		 pathogenic
GRCh38/hg38 12p13.33-11.1(chr12:121271-34603261)x3 copy number gain See cases [RCV000139052] Chr12:121271..34603261 [GRCh38]
Chr12:282465..34756196 [GRCh37]
Chr12:100698..34647463 [NCBI36]
Chr12:12p13.33-11.1		 pathogenic
GRCh38/hg38 12p13.33-11.1(chr12:212976-33926913)x4 copy number gain See cases [RCV000053666] Chr12:212976..33926913 [GRCh38]
Chr12:322142..34079848 [GRCh37]
Chr12:192403..33971115 [NCBI36]
Chr12:12p13.33-11.1		 pathogenic

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 1 1
Medium 18 1 7 180 1 17 16 1
Low 82 7 21 32 68 19 330 17 81 24 121 154 21 13 270 2
Below cutoff 413 527 250 129 448 89 1561 439 1089 165 477 583 45 370 990 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000539009
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1210,332,861 - 10,338,292 (-)Ensembl
RefSeq Acc Id: NR_159946
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381210,332,860 - 10,338,292 (-)NCBI
T2T-CHM13v2.01210,219,675 - 10,225,108 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC LINC02617 COSMIC
Ensembl Genes ENSG00000256288 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000539009 ENTREZGENE
GTEx ENSG00000256288 GTEx
HGNC ID HGNC:54089 ENTREZGENE
Human Proteome Map LINC02617 Human Proteome Map
NCBI Gene LINC02617 ENTREZGENE
RNAcentral URS0000E609FB RNACentral