LINC02981 (long intergenic non-protein coding RNA 2981) - Rat Genome Database

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Gene: LINC02981 (long intergenic non-protein coding RNA 2981) Homo sapiens
Analyze
Symbol: LINC02981
Name: long intergenic non-protein coding RNA 2981
RGD ID: 16552160
HGNC Page HGNC:56055
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: AC004540.1; LOC441204; uncharacterized LOC441204
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38726,398,569 - 26,540,950 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl726,398,593 - 26,497,595 (+)EnsemblGRCh38hg38GRCh38
GRCh37726,438,189 - 26,580,569 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map7p15.2NCBI
HuRef726,407,699 - 26,417,398 (+)NCBIHuRef
CHM1_1726,526,041 - 26,535,740 (+)NCBICHM1_1
T2T-CHM13v2.0726,534,255 - 26,676,631 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:11181995   PMID:12477932   PMID:14702039   PMID:16344560   PMID:28717243  


Genomics

Variants

.
Variants in LINC02981
10 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 7p15.2-14.3(chr7:25511691-30421133)x1 copy number loss See cases [RCV000052310] Chr7:25511691..30421133 [GRCh38]
Chr7:25551310..30460749 [GRCh37]
Chr7:25517835..30427274 [NCBI36]
Chr7:7p15.2-14.3		 pathogenic
GRCh38/hg38 7p22.1-15.2(chr7:5682209-27230311)x3 copy number gain See cases [RCV000136649] Chr7:5682209..27230311 [GRCh38]
Chr7:5721840..27269930 [GRCh37]
Chr7:5688366..27236455 [NCBI36]
Chr7:7p22.1-15.2		 pathogenic
GRCh38/hg38 7p22.3-15.2(chr7:54185-26827634)x3 copy number gain See cases [RCV000136557] Chr7:54185..26827634 [GRCh38]
Chr7:54185..26867253 [GRCh37]
Chr7:149268..26833778 [NCBI36]
Chr7:7p22.3-15.2		 pathogenic
GRCh38/hg38 7p22.3-q36.3(chr7:53985-159282531)x1 copy number loss See cases [RCV000052250] Chr7:53985..159282531 [GRCh38]
Chr7:53985..159075220 [GRCh37]
Chr7:149068..158767981 [NCBI36]
Chr7:7p22.3-q36.3		 pathogenic
GRCh38/hg38 7p21.1-14.3(chr7:20561456-32005143)x1 copy number loss See cases [RCV000136775] Chr7:20561456..32005143 [GRCh38]
Chr7:20601079..32044755 [GRCh37]
Chr7:20567604..32011280 [NCBI36]
Chr7:7p21.1-14.3		 pathogenic
GRCh38/hg38 7p22.3-14.1(chr7:54185-41875885)x3 copy number gain See cases [RCV000051159] Chr7:54185..41875885 [GRCh38]
Chr7:54185..41915483 [GRCh37]
Chr7:149268..41882008 [NCBI36]
Chr7:7p22.3-14.1		 pathogenic
GRCh38/hg38 7p21.1-15.2(chr7:20210912-27849400)x1 copy number loss See cases [RCV000134333] Chr7:20210912..27849400 [GRCh38]
Chr7:20250535..27889019 [GRCh37]
Chr7:20217060..27855544 [NCBI36]
Chr7:7p21.1-15.2		 pathogenic
GRCh38/hg38 7p22.3-15.2(chr7:1698124-27207295)x3 copy number gain See cases [RCV000143060] Chr7:1698124..27207295 [GRCh38]
Chr7:1737760..27246914 [GRCh37]
Chr7:1704286..27213439 [NCBI36]
Chr7:7p22.3-15.2		 pathogenic
GRCh38/hg38 7p22.3-15.2(chr7:43360-27196404)x3 copy number gain See cases [RCV000143586] Chr7:43360..27196404 [GRCh38]
Chr7:43360..27236023 [GRCh37]
Chr7:138443..27202548 [NCBI36]
Chr7:7p22.3-15.2		 pathogenic
GRCh38/hg38 7p22.3-14.2(chr7:54185-37089712)x3 copy number gain See cases [RCV000053530] Chr7:54185..37089712 [GRCh38]
Chr7:54185..37129317 [GRCh37]
Chr7:149268..37095842 [NCBI36]
Chr7:7p22.3-14.2		 pathogenic
GRCh38/hg38 7p15.2(chr7:25903388-27022498)x1 copy number loss See cases [RCV000140657] Chr7:25903388..27022498 [GRCh38]
Chr7:25943008..27062117 [GRCh37]
Chr7:25909533..27028642 [NCBI36]
Chr7:7p15.2		 likely pathogenic
GRCh38/hg38 7p22.3-q36.3(chr7:54185-159282390)x1 copy number loss See cases [RCV000135401] Chr7:54185..159282390 [GRCh38]
Chr7:54185..159075079 [GRCh37]
Chr7:149268..158767840 [NCBI36]
Chr7:7p22.3-q36.3		 pathogenic
GRCh38/hg38 7p15.2(chr7:25988742-26495573) copy number gain Autism spectrum disorder [RCV003883395] Chr7:25988742..26495573 [GRCh38]
Chr7:7p15.2		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1310
Count of miRNA genes:644
Interacting mature miRNAs:732
Transcripts:ENST00000418758, ENST00000420774, ENST00000421862, ENST00000430548, ENST00000439120, ENST00000448056, ENST00000449537
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 visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 3 18 7 3 7 3 176 30 33 29
Low 1437 875 879 158 658 73 2857 829 3353 339 1231 1029 93 1 1178 1634 2 2
Below cutoff 959 1991 771 415 915 341 1462 1331 171 40 183 507 79 26 1135 3

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_148499 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_148500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_148501 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_148502 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_148503 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_148504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_148505 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AA806478 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC004540 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC004947 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK022806 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK124471 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL713688 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC039415 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX097017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DA363385 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KF458415 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KF511009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000420774
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,652 - 26,399,654 (+)Ensembl
RefSeq Acc Id: ENST00000421862
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,601 - 26,494,847 (+)Ensembl
RefSeq Acc Id: ENST00000430548
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,601 - 26,480,022 (+)Ensembl
RefSeq Acc Id: ENST00000439120
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,593 - 26,495,203 (+)Ensembl
RefSeq Acc Id: ENST00000448056
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,440,259 - 26,494,114 (+)Ensembl
RefSeq Acc Id: ENST00000449537
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,613 - 26,399,563 (+)Ensembl
RefSeq Acc Id: ENST00000653091
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,429,462 - 26,494,344 (+)Ensembl
RefSeq Acc Id: ENST00000653226
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,908 - 26,496,163 (+)Ensembl
RefSeq Acc Id: ENST00000653576
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,629 - 26,496,291 (+)Ensembl
RefSeq Acc Id: ENST00000653790
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,930 - 26,401,216 (+)Ensembl
RefSeq Acc Id: ENST00000654666
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,853 - 26,494,777 (+)Ensembl
RefSeq Acc Id: ENST00000656424
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,429,426 - 26,494,342 (+)Ensembl
RefSeq Acc Id: ENST00000657230
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,902 - 26,494,844 (+)Ensembl
RefSeq Acc Id: ENST00000658860
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,860 - 26,496,367 (+)Ensembl
RefSeq Acc Id: ENST00000659679
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,838 - 26,497,595 (+)Ensembl
RefSeq Acc Id: ENST00000660902
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,838 - 26,496,367 (+)Ensembl
RefSeq Acc Id: ENST00000661822
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,938 - 26,494,777 (+)Ensembl
RefSeq Acc Id: ENST00000662959
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,430,735 - 26,494,344 (+)Ensembl
RefSeq Acc Id: ENST00000663877
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,947 - 26,496,472 (+)Ensembl
RefSeq Acc Id: ENST00000663961
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,853 - 26,399,670 (+)Ensembl
RefSeq Acc Id: ENST00000664882
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,906 - 26,496,367 (+)Ensembl
RefSeq Acc Id: ENST00000665801
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,487,141 - 26,494,350 (+)Ensembl
RefSeq Acc Id: ENST00000666369
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,430,780 - 26,494,429 (+)Ensembl
RefSeq Acc Id: ENST00000668828
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,829 - 26,496,163 (+)Ensembl
RefSeq Acc Id: ENST00000669588
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,429,419 - 26,494,455 (+)Ensembl
RefSeq Acc Id: ENST00000671222
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,829 - 26,496,339 (+)Ensembl
RefSeq Acc Id: ENST00000692881
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,871 - 26,496,155 (+)Ensembl
RefSeq Acc Id: ENST00000693280
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,876 - 26,497,499 (+)Ensembl
RefSeq Acc Id: ENST00000702207
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,853 - 26,496,173 (+)Ensembl
RefSeq Acc Id: ENST00000702901
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl726,398,654 - 26,497,499 (+)Ensembl
RefSeq Acc Id: NR_148499
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38726,398,569 - 26,540,950 (+)NCBI
T2T-CHM13v2.0726,534,255 - 26,676,631 (+)NCBI
Sequence:
RefSeq Acc Id: NR_148500
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38726,398,569 - 26,540,950 (+)NCBI
T2T-CHM13v2.0726,534,255 - 26,676,631 (+)NCBI
Sequence:
RefSeq Acc Id: NR_148501
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38726,398,569 - 26,540,950 (+)NCBI
T2T-CHM13v2.0726,534,255 - 26,676,631 (+)NCBI
Sequence:
RefSeq Acc Id: NR_148502
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38726,398,569 - 26,540,950 (+)NCBI
T2T-CHM13v2.0726,534,255 - 26,676,631 (+)NCBI
Sequence:
RefSeq Acc Id: NR_148503
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38726,398,569 - 26,501,948 (+)NCBI
T2T-CHM13v2.0726,534,255 - 26,637,634 (+)NCBI
Sequence:
RefSeq Acc Id: NR_148504
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38726,398,569 - 26,501,948 (+)NCBI
T2T-CHM13v2.0726,534,255 - 26,637,634 (+)NCBI
Sequence:
RefSeq Acc Id: NR_148505
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38726,398,569 - 26,399,655 (+)NCBI
T2T-CHM13v2.0726,534,255 - 26,535,341 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC LINC02981 COSMIC
Ensembl Genes ENSG00000214870 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000449537 ENTREZGENE
GTEx ENSG00000214870 GTEx
HGNC ID HGNC:56055 ENTREZGENE
Human Proteome Map LINC02981 Human Proteome Map
NCBI Gene LOC441204 ENTREZGENE
RNAcentral URS0000BC44CA RNACentral
  URS0000BC455A RNACentral
  URS0000BC456E RNACentral
  URS0000BC4590 RNACentral
  URS0000BC45A8 RNACentral
  URS0000BC45B5 RNACentral
  URS0000BC4626 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-12-13 LINC02981  long intergenic non-protein coding RNA 2981  AC004540.1  novel transcript  Symbol and/or name change 19259463 PROVISIONAL
2020-06-25 AC004540.1  novel transcript  LOC441204  uncharacterized LOC441204  Symbol and/or name change 19259462 PROVISIONAL
2020-06-18 LOC441204  uncharacterized LOC441204  AC004540.1  novel transcript  Symbol and/or name change 5135510 APPROVED