LINC01150 (long intergenic non-protein coding RNA 1150) - Rat Genome Database

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Gene: LINC01150 (long intergenic non-protein coding RNA 1150) Homo sapiens
Analyze
Symbol: LINC01150
Name: long intergenic non-protein coding RNA 1150
RGD ID: 7768748
HGNC Page HGNC:49469
Description: ASSOCIATED WITH delta beta-thalassemia; INTERACTS WITH 2-hydroxypropanoic acid; rac-lactic acid
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: 2G7; AC051649.16; TCONS_00019134
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38111,896,759 - 1,908,359 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl111,897,015 - 1,908,656 (+)EnsemblGRCh38hg38GRCh38
GRCh37111,917,989 - 1,929,589 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map11p15.5NCBI
HuRef111,737,470 - 1,742,858 (-)NCBIHuRef
CHM1_1111,922,783 - 1,928,166 (+)NCBICHM1_1
T2T-CHM13v2.0112,011,881 - 2,023,477 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:7892249   PMID:8968746  


Genomics

Variants

.
Variants in LINC01150
2 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 11p15.5-15.1(chr11:446754-18904742)x3 copy number gain See cases [RCV000133997] Chr11:446754..18904742 [GRCh38]
Chr11:446754..18926289 [GRCh37]
Chr11:436754..18882865 [NCBI36]
Chr11:11p15.5-15.1		 pathogenic
GRCh38/hg38 11p15.5-15.4(chr11:1537379-3360769)x3 copy number gain See cases [RCV000136847] Chr11:1537379..3360769 [GRCh38]
Chr11:1558609..3381999 [GRCh37]
Chr11:1515185..3338575 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
GRCh38/hg38 11p15.5-15.4(chr11:61793-10727969)x3 copy number gain See cases [RCV000139987] Chr11:61793..10727969 [GRCh38]
Chr11:61793..10749516 [GRCh37]
Chr11:51793..10706092 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
GRCh38/hg38 11p15.5-15.4(chr11:1132899-3213923)x1 copy number loss See cases [RCV000142464] Chr11:1132899..3213923 [GRCh38]
Chr11:1126807..3235153 [GRCh37]
Chr11:1116807..3191729 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
GRCh38/hg38 11p15.5-15.4(chr11:196855-5321874)x3 copy number gain See cases [RCV000142890] Chr11:196855..5321874 [GRCh38]
Chr11:196855..5343104 [GRCh37]
Chr11:186855..5299680 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
GRCh38/hg38 11p15.5(chr11:196855-2116185)x3 copy number gain See cases [RCV000142923] Chr11:196855..2116185 [GRCh38]
Chr11:196855..2137415 [GRCh37]
Chr11:186855..2093991 [NCBI36]
Chr11:11p15.5		 pathogenic
GRCh38/hg38 11p15.5-15.4(chr11:196966-4435344)x3 copy number gain See cases [RCV000050927] Chr11:196966..4435344 [GRCh38]
Chr11:196966..4456574 [GRCh37]
Chr11:186966..4413150 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
GRCh38/hg38 11p15.5-15.4(chr11:196966-3377077)x3 copy number gain See cases [RCV000050947] Chr11:196966..3377077 [GRCh38]
Chr11:196966..3398307 [GRCh37]
Chr11:186966..3354883 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
GRCh38/hg38 11p15.5(chr11:758848-1998025)x1 copy number loss See cases [RCV000052645] Chr11:758848..1998025 [GRCh38]
Chr11:758848..2019255 [GRCh37]
Chr11:748848..1975831 [NCBI36]
Chr11:11p15.5		 pathogenic
GRCh38/hg38 11p15.5-13(chr11:202758-31726224)x3 copy number gain See cases [RCV000053613] Chr11:202758..31726224 [GRCh38]
Chr11:202758..31747772 [GRCh37]
Chr11:192758..31704348 [NCBI36]
Chr11:11p15.5-13		 pathogenic
GRCh38/hg38 11p15.5-15.4(chr11:218365-3377077)x3 copy number gain See cases [RCV000053614] Chr11:218365..3377077 [GRCh38]
Chr11:218365..3398307 [GRCh37]
Chr11:208365..3354883 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
GRCh38/hg38 11p15.5-15.4(chr11:196966-3624139)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053592]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053592]|See cases [RCV000053592] Chr11:196966..3624139 [GRCh38]
Chr11:196966..3645369 [GRCh37]
Chr11:186966..3601945 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
NC_000011.10:g.(499700_4999400)_(5279346_5279697)del deletion Thalassemia, gamma-delta-beta [RCV000015529] Chr11:4999400..5279346 [GRCh38]
Chr11:11p15.5-15.4		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:119
Count of miRNA genes:118
Interacting mature miRNAs:119
Transcripts:ENST00000455671
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 81 6 1 5 2 1
Low 450 992 417 136 1040 99 1300 173 925 182 545 587 38 788 706 1
Below cutoff 1185 1226 651 219 555 136 1602 989 1531 114 481 488 84 338 1116 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000455671
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl111,897,015 - 1,908,656 (+)Ensembl
RefSeq Acc Id: ENST00000660469
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl111,897,047 - 1,908,656 (+)Ensembl
RefSeq Acc Id: NR_120534
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38111,896,759 - 1,908,359 (+)NCBI
CHM1_1111,916,899 - 1,928,501 (+)NCBI
T2T-CHM13v2.0112,011,881 - 2,023,477 (-)NCBI
Sequence:
Promoters
RGD ID:15096486
Promoter ID:EPDNEWNC_H1324
Type:initiation region
Name:LINC01150_1
Description:long intergenic non-protein coding RNA 1150 [Source:HGNCSymbol;Acc:HGNC:49469]
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
GRCh38111,897,028 - 1,897,088EPDNEWNC

Additional Information

Database Acc Id Source(s)
COSMIC LINC01150 COSMIC
Ensembl Genes ENSG00000229671 Ensembl
GTEx ENSG00000229671 GTEx
HGNC ID HGNC:49469 ENTREZGENE
Human Proteome Map LINC01150 Human Proteome Map
NCBI Gene LINC01150 ENTREZGENE
RNAcentral URS000075AE86 RNACentral