LINC01841 (long intergenic non-protein coding RNA 1841) - Rat Genome Database

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Advanced Search (OLGA)
Gene: LINC01841 (long intergenic non-protein coding RNA 1841) Homo sapiens
Analyze
Symbol: LINC01841
Name: long intergenic non-protein coding RNA 1841
RGD ID: 11565995
HGNC Page HGNC:52655
Description: INTERACTS WITH aflatoxin B1; Aflatoxin B2 alpha; benzo[e]pyrene
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
GRCh381914,305,458 - 14,363,990 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1914,304,940 - 14,370,196 (-)EnsemblGRCh38hg38GRCh38
GRCh371914,416,270 - 14,474,802 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map19p13.12NCBI
CHM1_11914,416,373 - 14,474,970 (-)NCBICHM1_1
T2T-CHM13v2.01914,432,054 - 14,490,668 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:16344560  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 19p13.2-13.12(chr19:12132052-14751798)x3 copy number gain See cases [RCV000052910] Chr19:12132052..14751798 [GRCh38]
Chr19:12242867..14862610 [GRCh37]
Chr19:12103867..14723610 [NCBI36]
Chr19:19p13.2-13.12		 pathogenic
GRCh38/hg38 19p13.12-q11(chr19:13974677-27839676)x3 copy number gain See cases [RCV000052912] Chr19:13974677..27839676 [GRCh38]
Chr19:14085489..28330584 [GRCh37]
Chr19:13946489..33022424 [NCBI36]
Chr19:19p13.12-q11		 pathogenic
GRCh38/hg38 19p13.2-13.12(chr19:11227942-14532135)x1 copy number loss Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053944]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053944]|See cases [RCV000053944] Chr19:11227942..14532135 [GRCh38]
Chr19:11338618..14642947 [GRCh37]
Chr19:11199618..14503947 [NCBI36]
Chr19:19p13.2-13.12		 pathogenic
GRCh38/hg38 19p13.2-q13.31(chr19:11227942-44626354)x3 copy number gain See cases [RCV000133888] Chr19:11227942..44626354 [GRCh38]
Chr19:11338618..45129651 [GRCh37]
Chr19:11199618..49821491 [NCBI36]
Chr19:19p13.2-q13.31		 pathogenic
GRCh38/hg38 19p13.12-13.11(chr19:14154962-16914313)x1 copy number loss See cases [RCV000134176] Chr19:14154962..16914313 [GRCh38]
Chr19:14265774..17025123 [GRCh37]
Chr19:14126774..16886123 [NCBI36]
Chr19:19p13.12-13.11		 pathogenic
GRCh38/hg38 19p13.13-13.12(chr19:13533925-15371089)x1 copy number loss See cases [RCV000136502] Chr19:13533925..15371089 [GRCh38]
Chr19:13644739..15481900 [GRCh37]
Chr19:13505739..15342900 [NCBI36]
Chr19:19p13.13-13.12		 pathogenic
GRCh38/hg38 19p13.2-13.12(chr19:12580427-14742673)x1 copy number loss See cases [RCV000135937] Chr19:12580427..14742673 [GRCh38]
Chr19:12691241..14853485 [GRCh37]
Chr19:12552241..14714485 [NCBI36]
Chr19:19p13.2-13.12		 pathogenic|likely pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:325
Count of miRNA genes:284
Interacting mature miRNAs:302
Transcripts:ENST00000586698, ENST00000588438
Prediction methods:Microtar, 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.


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298499UAE1_HUrinary albumin excretion QTL 1 (human)2.730.0009Urinary albumin excretionurine albumin:creatinine ratio (ACR)19116075902Human
1300034BP50_HBlood pressure QTL 50 (human)2.10.00094Blood pressuresystolic191108946337089463Human
1643451SLIPL6_HSerum lipid level QTL 6 (human)2.190.0008Lipid level19116075902Human
1581534BP76_HBlood pressure QTL 76 (human)20.001Blood pressurepulse pressure19116075902Human
597438890GWAS1534964_Htumor necrosis factor beta measurement QTL GWAS1534964 (human)0.000003tumor necrosis factor beta measurement191432565014325651Human
1581535BP65_HBlood pressure QTL 65 (human)3.10.001Blood pressurepulse pressure19116075902Human
597388433GWAS1484507_Hconotruncal heart malformations QTL GWAS1484507 (human)0.000006conotruncal heart malformations191433432614334327Human
2314591INSUL4_HInsulin level QTL 4 (human)3.80.000038Insulin levelfasting19116075902Human
1298476BP3_HBlood pressure QTL 3 (human)2.4Blood pressuresystolic19116075902Human
597399604GWAS1495678_Hadhesion G protein-coupled receptor E2 measurement QTL GWAS1495678 (human)1e-11adhesion G protein-coupled receptor E2 measurement191435988114359882Human


Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
entire extraembryonic component
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
817 1816 1480 1508 2203 841 1505 1 272 1864 200 1337 4900 4886 34 1596 565 1260 1109 75

Sequence


Ensembl Acc Id: ENST00000586698
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1914,304,946 - 14,363,990 (-)Ensembl
Ensembl Acc Id: ENST00000588438
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1914,325,352 - 14,370,196 (-)Ensembl
Ensembl Acc Id: ENST00000747197
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1914,304,940 - 14,363,893 (-)Ensembl
Ensembl Acc Id: ENST00000747198
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1914,317,380 - 14,363,983 (-)Ensembl
Ensembl Acc Id: ENST00000747199
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1914,317,385 - 14,363,893 (-)Ensembl
RefSeq Acc Id: NR_134908
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381914,305,458 - 14,363,990 (-)NCBI
CHM1_11914,416,373 - 14,474,970 (-)NCBI
T2T-CHM13v2.01914,432,054 - 14,490,668 (-)NCBI
Sequence:
Promoters
RGD ID:15097179
Promoter ID:EPDNEWNC_H2021
Type:initiation region
Name:LINC01841_1
Description:long intergenic non-protein coding RNA 1841 [Source:HGNCSymbol;Acc:HGNC:52655]
SO ACC ID:SO:0000170
Source:EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381914,363,965 - 14,364,025EPDNEWNC

Additional Information

Database Acc Id Source(s)
COSMIC LINC01841 COSMIC
Ensembl Genes ENSG00000266913 Ensembl
GTEx ENSG00000266913 GTEx
HGNC ID HGNC:52655 ENTREZGENE
Human Proteome Map LINC01841 Human Proteome Map
NCBI Gene LINC01841 ENTREZGENE
RNAcentral URS000017BF34 RNACentral
  URS0000392978 RNACentral