LINC00385 (long intergenic non-protein coding RNA 385) - Rat Genome Database

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Gene: LINC00385 (long intergenic non-protein coding RNA 385) Homo sapiens
Analyze
Symbol: LINC00385
Name: long intergenic non-protein coding RNA 385
RGD ID: 10058984
HGNC Page HGNC:42713
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
GRCh381330,153,762 - 30,169,031 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1330,153,744 - 30,160,592 (+)EnsemblGRCh38hg38GRCh38
Cytogenetic Map13q12.3NCBI
CHM1_11330,693,857 - 30,711,804 (+)NCBICHM1_1
T2T-CHM13v2.01329,376,292 - 29,391,561 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Genomics

Variants

.
Variants in LINC00385
2 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 13q11-13.3(chr13:18676442-37656039)x3 copy number gain See cases [RCV000053721] Chr13:18676442..37656039 [GRCh38]
Chr13:19250582..38230176 [GRCh37]
Chr13:18148582..37128176 [NCBI36]
Chr13:13q11-13.3		 pathogenic
GRCh38/hg38 13q12.11-12.3(chr13:18958091-31090460)x3 copy number gain See cases [RCV000053729] Chr13:18958091..31090460 [GRCh38]
Chr13:19532231..31664597 [GRCh37]
Chr13:18430231..30562597 [NCBI36]
Chr13:13q12.11-12.3		 pathogenic
GRCh38/hg38 13q12.3-13.1(chr13:29654134-32858245)x1 copy number loss See cases [RCV000051372] Chr13:29654134..32858245 [GRCh38]
Chr13:30228271..33432383 [GRCh37]
Chr13:29126271..32330383 [NCBI36]
Chr13:13q12.3-13.1		 pathogenic
GRCh38/hg38 13q11-13.2(chr13:18862146-33577351)x3 copy number gain See cases [RCV000141867] Chr13:18862146..33577351 [GRCh38]
Chr13:19436286..34151488 [GRCh37]
Chr13:18334286..33049488 [NCBI36]
Chr13:13q11-13.2		 pathogenic
GRCh38/hg38 13q12.3-13.3(chr13:29321454-36995348)x3 copy number gain See cases [RCV000142869] Chr13:29321454..36995348 [GRCh38]
Chr13:29895591..37569485 [GRCh37]
Chr13:28793591..36467485 [NCBI36]
Chr13:13q12.3-13.3		 pathogenic
GRCh38/hg38 13q11-34(chr13:18565048-114327173)x3 copy number gain See cases [RCV000053719] Chr13:18565048..114327173 [GRCh38]
Chr13:19139188..115085141 [GRCh37]
Chr13:18037188..114110750 [NCBI36]
Chr13:13q11-34		 pathogenic
GRCh38/hg38 13q11-34(chr13:18850545-114327173)x3 copy number gain See cases [RCV000053723] Chr13:18850545..114327173 [GRCh38]
Chr13:19296527..115085141 [GRCh37]
Chr13:18194527..114110750 [NCBI36]
Chr13:13q11-34		 pathogenic
GRCh38/hg38 13q12.11-34(chr13:18946182-114304628)x3 copy number gain See cases [RCV000053726] Chr13:18946182..114304628 [GRCh38]
Chr13:19520322..115070103 [GRCh37]
Chr13:18418322..114088205 [NCBI36]
Chr13:13q12.11-34		 pathogenic
GRCh38/hg38 13q12.11-34(chr13:19837395-114327173)x3 copy number gain See cases [RCV000053731] Chr13:19837395..114327173 [GRCh38]
Chr13:20411535..115085141 [GRCh37]
Chr13:19309535..114110750 [NCBI36]
Chr13:13q12.11-34		 pathogenic
GRCh38/hg38 13q12.11-34(chr13:19833130-114298614)x3 copy number gain See cases [RCV000134104] Chr13:19833130..114298614 [GRCh38]
Chr13:20407270..115064089 [GRCh37]
Chr13:19305270..114082191 [NCBI36]
Chr13:13q12.11-34		 pathogenic
GRCh38/hg38 13q11-34(chr13:18445862-114327173)x1 copy number loss See cases [RCV000135610] Chr13:18445862..114327173 [GRCh38]
Chr13:19020001..115085141 [GRCh37]
Chr13:10098739..114110750 [NCBI36]
Chr13:13q11-34		 pathogenic
GRCh38/hg38 13q12.11-34(chr13:19833130-114327106)x3 copy number gain See cases [RCV000139078] Chr13:19833130..114327106 [GRCh38]
Chr13:20407270..115085141 [GRCh37]
Chr13:19305270..114110683 [NCBI36]
Chr13:13q12.11-34		 pathogenic
GRCh38/hg38 13q11-34(chr13:18456040-114340285)x3 copy number gain See cases [RCV000140004] Chr13:18456040..114340285 [GRCh38]
Chr13:19030180..115105760 [GRCh37]
Chr13:17928180..114123862 [NCBI36]
Chr13:13q11-34		 pathogenic
GRCh38/hg38 13q12.11-34(chr13:19671934-114340331)x3 copy number gain See cases [RCV000142924] Chr13:19671934..114340331 [GRCh38]
Chr13:20246074..115085141 [GRCh37]
Chr13:19144074..114123908 [NCBI36]
Chr13:13q12.11-34		 pathogenic
GRCh38/hg38 13q11-34(chr13:18862146-114342258)x3 copy number gain See cases [RCV000143462] Chr13:18862146..114342258 [GRCh38]
Chr13:19436286..115107733 [GRCh37]
Chr13:18334286..114125835 [NCBI36]
Chr13:13q11-34		 pathogenic
GRCh38/hg38 13q12.11-34(chr13:19837395-114327173)x3 copy number gain See cases [RCV000148126] Chr13:19837395..114327173 [GRCh38]
Chr13:20411535..115085141 [GRCh37]
Chr13:19309535..114110750 [NCBI36]
Chr13:13q12.11-34		 pathogenic
GRCh38/hg38 13q12.11-14.11(chr13:19671934-40914767)x3 copy number gain See cases [RCV000137892] Chr13:19671934..40914767 [GRCh38]
Chr13:20246074..41488903 [GRCh37]
Chr13:19144074..40386903 [NCBI36]
Chr13:13q12.11-14.11		 pathogenic
GRCh38/hg38 13q12.3-13.3(chr13:29073320-36556014)x1 copy number loss See cases [RCV000137923] Chr13:29073320..36556014 [GRCh38]
Chr13:29647457..37130151 [GRCh37]
Chr13:28545457..36028151 [NCBI36]
Chr13:13q12.3-13.3		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:339
Count of miRNA genes:313
Interacting mature miRNAs:331
Transcripts:ENST00000435044
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 endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system
High
Medium 1
Low 1 1 1
Below cutoff 4 1 1 6 1 2 1 6 3

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000435044
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1330,153,744 - 30,160,592 (+)Ensembl
RefSeq Acc Id: NR_187532
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381330,153,762 - 30,169,031 (+)NCBI
T2T-CHM13v2.01329,376,292 - 29,391,561 (+)NCBI
RefSeq Acc Id: NR_187533
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381330,153,762 - 30,169,031 (+)NCBI
T2T-CHM13v2.01329,376,292 - 29,391,561 (+)NCBI
RefSeq Acc Id: NR_187534
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381330,153,762 - 30,160,592 (+)NCBI
T2T-CHM13v2.01329,376,292 - 29,383,122 (+)NCBI
RefSeq Acc Id: NR_187535
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381330,153,762 - 30,160,592 (+)NCBI
T2T-CHM13v2.01329,376,292 - 29,383,122 (+)NCBI

Additional Information

Database Acc Id Source(s)
COSMIC LINC00385 COSMIC
Ensembl Genes ENSG00000232643 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000435044 ENTREZGENE
GTEx ENSG00000232643 GTEx
HGNC ID HGNC:42713 ENTREZGENE
Human Proteome Map LINC00385 Human Proteome Map
NCBI Gene LINC00385 ENTREZGENE
RNAcentral URS00026A1B7C RNACentral
  URS00026A1ECB RNACentral
  URS00026A2526 RNACentral
  URS00026A2620 RNACentral