LINC02713 (long intergenic non-protein coding RNA 2713) - Rat Genome Database

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Gene: LINC02713 (long intergenic non-protein coding RNA 2713) Homo sapiens
Analyze
Symbol: LINC02713
Name: long intergenic non-protein coding RNA 2713
RGD ID: 14694885
HGNC Page HGNC:54230
Description: ASSOCIATED WITH Autism; autistic disorder
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
GRCh381197,878,781 - 97,957,083 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1197,878,475 - 97,959,558 (-)EnsemblGRCh38hg38GRCh38
Cytogenetic Map11q22.1NCBI
CHM1_11197,632,797 - 97,710,836 (-)NCBICHM1_1
T2T-CHM13v2.01197,885,560 - 97,963,468 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
Autism  (IAGP)
References

Genomics

Variants

.
Variants in LINC02713
4 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 11q22.1(chr11:97402156-98439199)x1 copy number loss See cases [RCV000053257] Chr11:97402156..98439199 [GRCh38]
Chr11:97273156..98309928 [GRCh37]
Chr11:96778366..97815138 [NCBI36]
Chr11:11q22.1		 uncertain significance
GRCh38/hg38 11q14.1-22.3(chr11:78232836-106779420)x1 copy number loss See cases [RCV000052710] Chr11:78232836..106779420 [GRCh38]
Chr11:77943882..106650146 [GRCh37]
Chr11:77621530..106155356 [NCBI36]
Chr11:11q14.1-22.3		 pathogenic
NC_000011.10:g.(?_96535656)_(99184810_?)del deletion Autism [RCV000754137] Chr11:96535656..99184810 [GRCh38]
Chr11:11q21-22.1		 likely pathogenic
GRCh38/hg38 11q14.1-22.2(chr11:85242847-102920097)x1 copy number loss See cases [RCV000052711] Chr11:85242847..102920097 [GRCh38]
Chr11:84953891..102738968 [GRCh37]
Chr11:84631539..102296037 [NCBI36]
Chr11:11q14.1-22.2		 pathogenic
GRCh38/hg38 11q21-22.1(chr11:96761623-98053458)x3 copy number gain See cases [RCV000134412] Chr11:96761623..98053458 [GRCh38]
Chr11:96632623..97924186 [GRCh37]
Chr11:96137833..97429396 [NCBI36]
Chr11:11q21-22.1		 benign
GRCh38/hg38 11q22.1(chr11:97849768-98357901)x1 copy number loss See cases [RCV000134408] Chr11:97849768..98357901 [GRCh38]
Chr11:97720768..98228629 [GRCh37]
Chr11:97225978..97733839 [NCBI36]
Chr11:11q22.1		 benign
GRCh38/hg38 11q22.1(chr11:97849768-98439058)x1 copy number loss See cases [RCV000135751] Chr11:97849768..98439058 [GRCh38]
Chr11:97720768..98309787 [GRCh37]
Chr11:97225978..97814997 [NCBI36]
Chr11:11q22.1		 benign|conflicting interpretations of pathogenicity|conflicting data from submitters
GRCh38/hg38 11q13.5-22.1(chr11:75941754-98357960)x1 copy number loss See cases [RCV000133838] Chr11:75941754..98357960 [GRCh38]
Chr11:75652798..98228688 [GRCh37]
Chr11:75330446..97733898 [NCBI36]
Chr11:11q13.5-22.1		 pathogenic
GRCh38/hg38 11q14.3-22.3(chr11:91086659-109595582)x1 copy number loss See cases [RCV000138038] Chr11:91086659..109595582 [GRCh38]
Chr11:90819827..109466308 [GRCh37]
Chr11:90459475..108971518 [NCBI36]
Chr11:11q14.3-22.3		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:146
Count of miRNA genes:140
Interacting mature miRNAs:141
Transcripts:ENST00000526385, ENST00000527281
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 adipose tissue appendage entire extraembryonic component
High
Medium 1 5
Low 3 9 4 5 4 3 3 2 2 363 12
Below cutoff 29 103 86 56 72 54 66 31 47 46 54 44 4 10 31 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000526385
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1197,878,781 - 97,942,762 (-)Ensembl
RefSeq Acc Id: ENST00000527281
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1197,918,423 - 97,942,762 (-)Ensembl
RefSeq Acc Id: ENST00000653025
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1197,878,781 - 97,957,069 (-)Ensembl
RefSeq Acc Id: ENST00000665262
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1197,916,635 - 97,957,083 (-)Ensembl
RefSeq Acc Id: ENST00000667244
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1197,942,135 - 97,959,558 (-)Ensembl
RefSeq Acc Id: ENST00000667368
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1197,878,475 - 97,957,086 (-)Ensembl
RefSeq Acc Id: ENST00000667954
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1197,916,635 - 97,957,074 (-)Ensembl
RefSeq Acc Id: NR_183633
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381197,878,781 - 97,957,083 (-)NCBI
T2T-CHM13v2.01197,885,560 - 97,963,468 (-)NCBI

Additional Information

Database Acc Id Source(s)
COSMIC LINC02713 COSMIC
Ensembl Genes ENSG00000255502 Ensembl
GTEx ENSG00000255502 GTEx
HGNC ID HGNC:54230 ENTREZGENE
Human Proteome Map LINC02713 Human Proteome Map
NCBI Gene LINC02713 ENTREZGENE
RNAcentral URS00026A27A8 RNACentral