LRP1-AS (LRP1 antisense RNA) - Rat Genome Database

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Gene: LRP1-AS (LRP1 antisense RNA) Homo sapiens
Analyze
Symbol: LRP1-AS
Name: LRP1 antisense RNA
RGD ID: 10043521
HGNC Page HGNC:51694
Description: ASSOCIATED WITH Developmental Dysplasia of the Hip 3; INTERACTS WITH lipopolysaccharide; S-(1,2-dichlorovinyl)-L-cysteine
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
GRCh381257,144,620 - 57,147,619 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1257,144,620 - 57,147,619 (-)EnsemblGRCh38hg38GRCh38
GRCh371257,538,403 - 57,541,402 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map12q13.3NCBI
CHM1_11257,506,087 - 57,509,085 (-)NCBICHM1_1
T2T-CHM13v2.01257,112,455 - 57,115,454 (-)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:8889548   PMID:25937287  


Genomics

Variants

.
Variants in LRP1-AS
9 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 12q13.3-14.2(chr12:57013355-63042498)x1 copy number loss See cases [RCV000052813] Chr12:57013355..63042498 [GRCh38]
Chr12:57407139..63436278 [GRCh37]
Chr12:55693406..61722545 [NCBI36]
Chr12:12q13.3-14.2		 pathogenic
GRCh38/hg38 12q13.3-14.1(chr12:57041158-60273934)x1 copy number loss See cases [RCV000052814] Chr12:57041158..60273934 [GRCh38]
Chr12:57434942..60667715 [GRCh37]
Chr12:55721209..58953982 [NCBI36]
Chr12:12q13.3-14.1		 pathogenic
GRCh38/hg38 12p13.33-q24.33(chr12:121271-133196807)x3 copy number gain See cases [RCV000139555] Chr12:121271..133196807 [GRCh38]
Chr12:282465..133773393 [GRCh37]
Chr12:100698..132283466 [NCBI36]
Chr12:12p13.33-q24.33		 pathogenic
NM_002332.3(LRP1):c.489A>G (p.Leu163=) single nucleotide variant not provided [RCV000907788] Chr12:57145012 [GRCh38]
Chr12:57538795 [GRCh37]
Chr12:12q13.3		 benign
NM_002332.3(LRP1):c.635C>T (p.Thr212Met) single nucleotide variant not specified [RCV004304314] Chr12:57145284 [GRCh38]
Chr12:57539067 [GRCh37]
Chr12:12q13.3		 uncertain significance
NM_002332.3(LRP1):c.543G>A (p.Leu181=) single nucleotide variant not provided [RCV000910113] Chr12:57145066 [GRCh38]
Chr12:57538849 [GRCh37]
Chr12:12q13.3		 benign
NM_002332.3(LRP1):c.762G>A (p.Thr254=) single nucleotide variant not provided [RCV000955446] Chr12:57145411 [GRCh38]
Chr12:57539194 [GRCh37]
Chr12:12q13.3		 benign
NM_002332.3(LRP1):c.713C>T (p.Ala238Val) single nucleotide variant not specified [RCV004106690] Chr12:57145362 [GRCh38]
Chr12:57539145 [GRCh37]
Chr12:12q13.3		 uncertain significance
NM_002332.3(LRP1):c.805G>A (p.Asp269Asn) single nucleotide variant not specified [RCV004241810] Chr12:57145454 [GRCh38]
Chr12:57539237 [GRCh37]
Chr12:12q13.3		 uncertain significance
NM_002332.3(LRP1):c.838C>T (p.His280Tyr) single nucleotide variant not specified [RCV004078760] Chr12:57145487 [GRCh38]
Chr12:57539270 [GRCh37]
Chr12:12q13.3		 uncertain significance
NM_002332.3(LRP1):c.670C>G (p.Pro224Ala) single nucleotide variant Developmental dysplasia of the hip 3 [RCV003493370] Chr12:57145319 [GRCh38]
Chr12:57539102 [GRCh37]
Chr12:12q13.3		 pathogenic
NM_002332.3(LRP1):c.650C>T (p.Ala217Val) single nucleotide variant LRP1-related condition [RCV003924523] Chr12:57145299 [GRCh38]
Chr12:57539082 [GRCh37]
Chr12:12q13.3		 benign
NM_002332.3(LRP1):c.471C>T (p.Tyr157=) single nucleotide variant LRP1-related condition [RCV003906870] Chr12:57144994 [GRCh38]
Chr12:57538777 [GRCh37]
Chr12:12q13.3		 likely benign
NM_002332.3(LRP1):c.548C>T (p.Pro183Leu) single nucleotide variant not specified [RCV004413014] Chr12:57145071 [GRCh38]
Chr12:57538854 [GRCh37]
Chr12:12q13.3		 uncertain significance
NM_002332.3(LRP1):c.716A>G (p.Asn239Ser) single nucleotide variant not specified [RCV004413020] Chr12:57145365 [GRCh38]
Chr12:57539148 [GRCh37]
Chr12:12q13.3		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:327
Count of miRNA genes:275
Interacting mature miRNAs:294
Transcripts:ENST00000554476, ENST00000555461
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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
Low 227 471 226 73 56 47 518 135 418 27 396 444 26 273 333 1
Below cutoff 1711 1915 1173 424 916 306 2774 1306 2590 205 798 863 125 870 1673 3

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000554476
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1257,146,490 - 57,147,529 (-)Ensembl
RefSeq Acc Id: ENST00000555461
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1257,144,620 - 57,147,619 (-)Ensembl
RefSeq Acc Id: NR_131938
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381257,144,620 - 57,147,619 (-)NCBI
CHM1_11257,506,087 - 57,509,085 (-)NCBI
T2T-CHM13v2.01257,112,455 - 57,115,454 (-)NCBI
Sequence:
RefSeq Acc Id: NR_131939
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381257,146,490 - 57,147,619 (-)NCBI
CHM1_11257,507,956 - 57,509,085 (-)NCBI
T2T-CHM13v2.01257,114,325 - 57,115,454 (-)NCBI
Sequence:
Promoters
RGD ID:15096611
Promoter ID:EPDNEWNC_H1455
Type:initiation region
Name:LRP1-AS_1
Description:LRP1 antisense RNA [Source:HGNC Symbol;Acc:HGNC:51694]
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
GRCh381257,147,565 - 57,147,625EPDNEWNC

Additional Information

Database Acc Id Source(s)
COSMIC LRP1-AS COSMIC
Ensembl Genes ENSG00000259125 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000555461 ENTREZGENE
GTEx ENSG00000259125 GTEx
HGNC ID HGNC:51694 ENTREZGENE
Human Proteome Map LRP1-AS Human Proteome Map
NCBI Gene LRP1-AS ENTREZGENE
RNAcentral URS0000103821 RNACentral
  URS0000D57DD3 RNACentral