LINC00513 (long intergenic non-protein coding RNA 513) - Rat Genome Database

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Gene: LINC00513 (long intergenic non-protein coding RNA 513) Homo sapiens
Analyze
Symbol: LINC00513
Name: long intergenic non-protein coding RNA 513
RGD ID: 11575614
HGNC Page HGNC:43566
Description: INTERACTS WITH 17beta-estradiol; aristolochic acid A; cyclosporin A
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
GRCh387130,913,464 - 130,921,946 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7130,853,720 - 130,930,682 (+)EnsemblGRCh38hg38GRCh38
GRCh377130,598,223 - 130,606,705 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera7125,289,566 - 125,364,485 (+)NCBICelera
Cytogenetic Map7q32.3NCBI
HuRef7124,916,231 - 124,922,204 (+)NCBIHuRef
CHM1_17130,533,464 - 130,540,395 (+)NCBICHM1_1
T2T-CHM13v2.07132,230,974 - 132,239,461 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
COVID-19  (HEP)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transcriptomic characteristics of bronchoalveolar lavage fluid and peripheral blood mononuclear cells in COVID-19 patients. Xiong Y, etal., Emerg Microbes Infect. 2020 Dec;9(1):761-770. doi: 10.1080/22221751.2020.1747363.
Additional References at PubMed
PMID:16341674   PMID:27980086   PMID:30619325  


Genomics

Variants

.
Variants in LINC00513
1 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 7q32.1-36.3(chr7:129310166-159282390)x3 copy number gain See cases [RCV000050876] Chr7:129310166..159282390 [GRCh38]
Chr7:128950007..159075079 [GRCh37]
Chr7:128737243..158767840 [NCBI36]
Chr7:7q32.1-36.3		 pathogenic
GRCh38/hg38 7q32.1-33(chr7:128747478-134018250)x3 copy number gain See cases [RCV000051072] Chr7:128747478..134018250 [GRCh38]
Chr7:128387532..133703003 [GRCh37]
Chr7:128174768..133353543 [NCBI36]
Chr7:7q32.1-33		 pathogenic
GRCh38/hg38 7q31.33-32.3(chr7:126859732-132750936)x1 copy number loss See cases [RCV000054171] Chr7:126859732..132750936 [GRCh38]
Chr7:126499786..132435696 [GRCh37]
Chr7:126287022..132086236 [NCBI36]
Chr7:7q31.33-32.3		 pathogenic
GRCh38/hg38 7q31.2-33(chr7:117326805-134790689)x1 copy number loss See cases [RCV000138226] Chr7:117326805..134790689 [GRCh38]
Chr7:116966859..134475440 [GRCh37]
Chr7:116754095..134125980 [NCBI36]
Chr7:7q31.2-33		 pathogenic
GRCh38/hg38 7q31.32-36.3(chr7:121863759-159335865)x3 copy number gain See cases [RCV000138847] Chr7:121863759..159335865 [GRCh38]
Chr7:121503813..159128555 [GRCh37]
Chr7:121291049..158821316 [NCBI36]
Chr7:7q31.32-36.3		 pathogenic
GRCh38/hg38 7q31.33-33(chr7:124170657-134163594)x1 copy number loss See cases [RCV000142552] Chr7:124170657..134163594 [GRCh38]
Chr7:123810711..133848346 [GRCh37]
Chr7:123597947..133498886 [NCBI36]
Chr7:7q31.33-33		 pathogenic
GRCh38/hg38 7q32.2-32.3(chr7:130652821-131101662)x3 copy number gain See cases [RCV000140272] Chr7:130652821..131101662 [GRCh38]
Chr7:130337661..130786421 [GRCh37]
Chr7:129988201..130436961 [NCBI36]
Chr7:7q32.2-32.3		 uncertain significance
GRCh38/hg38 7q31.2-36.3(chr7:115459015-159325817)x3 copy number gain See cases [RCV000141413] Chr7:115459015..159325817 [GRCh38]
Chr7:115099069..159118507 [GRCh37]
Chr7:114886305..158811268 [NCBI36]
Chr7:7q31.2-36.3		 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 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 7q21.3-36.3(chr7:97419852-158923762)x3 copy number gain See cases [RCV000136717] Chr7:97419852..158923762 [GRCh38]
Chr7:97049164..158716453 [GRCh37]
Chr7:96887100..158409214 [NCBI36]
Chr7:7q21.3-36.3		 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
Medium 17 11 5 2 5 3 4 2 1 4 16 1
Low 587 569 985 250 959 181 960 139 636 234 752 1132 82 630 500 2
Below cutoff 1708 2140 714 354 856 267 3128 1892 2775 171 666 452 86 570 2115 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000447430
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl7130,853,720 - 130,928,649 (+)Ensembl
RefSeq Acc Id: ENST00000653887
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl7130,853,732 - 130,930,680 (+)Ensembl
RefSeq Acc Id: ENST00000664231
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl7130,913,508 - 130,930,680 (+)Ensembl
RefSeq Acc Id: ENST00000666086
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl7130,927,316 - 130,930,682 (+)Ensembl
RefSeq Acc Id: NR_109780
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh387130,913,464 - 130,921,946 (+)NCBI
CHM1_17130,531,895 - 130,540,395 (+)NCBI
T2T-CHM13v2.07132,230,974 - 132,239,461 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC LINC00513 COSMIC
Ensembl Genes ENSG00000233559 Ensembl
GTEx ENSG00000233559 GTEx
HGNC ID HGNC:43566 ENTREZGENE
Human Proteome Map LINC00513 Human Proteome Map
NCBI Gene LINC00513 ENTREZGENE
RNAcentral URS000075E2F6 RNACentral