Lrp11 (LDL receptor related protein 11) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Lrp11 (LDL receptor related protein 11) Rattus norvegicus
Analyze
Symbol: Lrp11
Name: LDL receptor related protein 11
RGD ID: 1308602
Description: Predicted to enable phosphoprotein binding activity. Predicted to be involved in several processes, including response to cold; response to immobilization stress; and response to water deprivation. Predicted to be located in membrane. Orthologous to human LRP11 (LDL receptor related protein 11); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC108348623; LOC292462; low density lipoprotein receptor-related protein 11; low-density lipoprotein receptor-related protein 11; uncharacterized LOC108348623
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr813,868,665 - 3,928,513 (+)NCBIGRCr8
mRatBN7.212,048,307 - 2,108,115 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl12,079,438 - 2,108,110 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx11,729,407 - 1,757,939 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.017,729,801 - 7,758,337 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.012,011,504 - 2,040,040 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.011,702,696 - 1,731,210 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl11,702,696 - 1,731,210 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013,400,376 - 3,428,890 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.412,255,892 - 2,284,328 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.112,255,572 - 2,284,326 (+)NCBI
Celera1627,810 - 656,231 (+)NCBICelera
Cytogenetic Map1p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dichloroethane  (ISO)
17beta-estradiol  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3-methylcholanthrene  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (EXP)
amitrole  (EXP)
amphetamine  (EXP)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bisphenol A  (EXP)
bisphenol F  (ISO)
buspirone  (EXP)
butanal  (ISO)
carbamazepine  (ISO)
chlordecone  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
cisplatin  (EXP,ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
gentamycin  (EXP)
L-methionine  (ISO)
lead(0)  (ISO)
leflunomide  (ISO)
methimazole  (EXP)
methylmercury chloride  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
propiconazole  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
temozolomide  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
tributylstannane  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17620599   PMID:25262641  


Genomics

Comparative Map Data
Lrp11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr813,868,665 - 3,928,513 (+)NCBIGRCr8
mRatBN7.212,048,307 - 2,108,115 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl12,079,438 - 2,108,110 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx11,729,407 - 1,757,939 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.017,729,801 - 7,758,337 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.012,011,504 - 2,040,040 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.011,702,696 - 1,731,210 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl11,702,696 - 1,731,210 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013,400,376 - 3,428,890 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.412,255,892 - 2,284,328 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.112,255,572 - 2,284,326 (+)NCBI
Celera1627,810 - 656,231 (+)NCBICelera
Cytogenetic Map1p13NCBI
LRP11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386149,818,757 - 149,864,359 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6149,818,757 - 149,864,359 (-)EnsemblGRCh38hg38GRCh38
GRCh376150,139,893 - 150,185,495 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366150,181,625 - 150,227,173 (-)NCBINCBI36Build 36hg18NCBI36
Build 346150,232,047 - 150,277,594NCBI
Celera6150,874,576 - 150,920,142 (-)NCBICelera
Cytogenetic Map6q25.1NCBI
HuRef6147,705,413 - 147,750,966 (-)NCBIHuRef
CHM1_16150,404,503 - 150,450,092 (-)NCBICHM1_1
T2T-CHM13v2.06151,018,123 - 151,063,700 (-)NCBIT2T-CHM13v2.0
Lrp11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39107,465,532 - 7,501,247 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl107,465,564 - 7,501,247 (+)EnsemblGRCm39 Ensembl
GRCm38107,589,817 - 7,624,768 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl107,589,800 - 7,625,483 (+)EnsemblGRCm38mm10GRCm38
MGSCv37107,309,598 - 7,345,281 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36107,280,007 - 7,315,665 (+)NCBIMGSCv36mm8
Celera107,466,883 - 7,504,024 (+)NCBICelera
Cytogenetic Map10A1NCBI
cM Map102.23NCBI
Lrp11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495543911,426,283 - 11,475,260 (+)NCBIChiLan1.0ChiLan1.0
LRP11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25169,837,204 - 169,882,414 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16167,730,807 - 167,776,404 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06147,630,742 - 147,676,322 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16152,336,565 - 152,381,664 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6152,336,565 - 152,381,664 (-)Ensemblpanpan1.1panPan2
LRP11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1140,545,864 - 40,590,492 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl140,545,421 - 40,591,286 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha141,384,289 - 41,432,830 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0140,726,928 - 40,775,778 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl140,733,653 - 40,772,711 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1140,602,644 - 40,648,301 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0140,468,658 - 40,514,453 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0140,809,143 - 40,857,953 (-)NCBIUU_Cfam_GSD_1.0
Lrp11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946135,471,018 - 135,517,723 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364892,722,886 - 2,770,160 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364892,723,086 - 2,769,928 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRP11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl116,139,496 - 16,198,969 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1116,139,227 - 16,198,974 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2118,476,652 - 18,537,105 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LRP11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11321,760,342 - 21,802,241 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1321,760,411 - 21,802,242 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040197,792,395 - 197,833,192 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrp11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247858,205,602 - 8,258,205 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247858,205,598 - 8,320,131 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lrp11
314 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:387
Count of miRNA genes:228
Interacting mature miRNAs:280
Transcripts:ENSRNOT00000019181
Prediction methods:Microtar, Miranda, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128736750Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)1132356093Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)150910843284926Rat
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1124744506Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)150910843284926Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)150910843284926Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1132356093Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1132356093Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1165833076Rat

Markers in Region
RH131343  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.212,107,859 - 2,108,079 (+)MAPPERmRatBN7.2
Rnor_6.011,730,960 - 1,731,179NCBIRnor6.0
Rnor_5.013,428,640 - 3,428,859UniSTSRnor5.0
RGSC_v3.412,284,078 - 2,284,297UniSTSRGSC3.4
Celera1655,981 - 656,200UniSTS
Cytogenetic Map1p13UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000019181   ⟹   ENSRNOP00000019181
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl12,079,438 - 2,108,110 (+)Ensembl
Rnor_6.0 Ensembl11,702,696 - 1,731,210 (+)Ensembl
RefSeq Acc Id: NM_001106217   ⟹   NP_001099687
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,899,995 - 3,928,513 (+)NCBI
mRatBN7.212,079,604 - 2,108,115 (+)NCBI
Rnor_6.011,702,696 - 1,731,210 (+)NCBI
Rnor_5.013,400,376 - 3,428,890 (+)NCBI
RGSC_v3.412,255,892 - 2,284,328 (+)RGD
Celera1627,810 - 656,231 (+)RGD
Sequence:
RefSeq Acc Id: XM_039103574   ⟹   XP_038959502
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,889,702 - 3,928,513 (+)NCBI
mRatBN7.212,078,944 - 2,108,115 (+)NCBI
RefSeq Acc Id: XM_039103584   ⟹   XP_038959512
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,889,702 - 3,928,513 (+)NCBI
mRatBN7.212,078,936 - 2,108,115 (+)NCBI
RefSeq Acc Id: XM_039103592   ⟹   XP_038959520
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,889,702 - 3,928,513 (+)NCBI
mRatBN7.212,078,926 - 2,108,115 (+)NCBI
RefSeq Acc Id: XM_063282916   ⟹   XP_063138986
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,889,702 - 3,919,620 (+)NCBI
RefSeq Acc Id: XM_063282917   ⟹   XP_063138987
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,889,702 - 3,928,513 (+)NCBI
RefSeq Acc Id: XM_063282919   ⟹   XP_063138989
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,868,665 - 3,928,513 (+)NCBI
RefSeq Acc Id: NP_001099687   ⟸   NM_001106217
- Peptide Label: precursor
- Sequence:
Ensembl Acc Id: ENSRNOP00000019181   ⟸   ENSRNOT00000019181
RefSeq Acc Id: XP_038959520   ⟸   XM_039103592
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038959512   ⟸   XM_039103584
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038959502   ⟸   XM_039103574
- Peptide Label: isoform X1
- UniProtKB: F1M753 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063138989   ⟸   XM_063282919
- Peptide Label: isoform X6
RefSeq Acc Id: XP_063138987   ⟸   XM_063282917
- Peptide Label: isoform X5
RefSeq Acc Id: XP_063138986   ⟸   XM_063282916
- Peptide Label: isoform X2
Protein Domains
MANSC   PKD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M753-F1-model_v2 AlphaFold F1M753 1-232 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13689478
Promoter ID:EPDNEW_R2
Type:initiation region
Name:Lrp11_1
Description:LDL receptor related protein 11
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.011,702,716 - 1,702,776EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308602 AgrOrtholog
BioCyc Gene G2FUF-62456 BioCyc
Ensembl Genes ENSRNOG00000014303 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019181.6 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  4.10.400.10 UniProtKB/TrEMBL
InterPro Ig-like_fold UniProtKB/TrEMBL
  LDL_receptor-like_sf UniProtKB/TrEMBL
  LDLR_class-A_CS UniProtKB/TrEMBL
  LDrepeatLR_classA_rpt UniProtKB/TrEMBL
  MANSC_dom UniProtKB/TrEMBL
  MANSC_N UniProtKB/TrEMBL
  PKD_dom UniProtKB/TrEMBL
  PKD_dom_sf UniProtKB/TrEMBL
KEGG Report rno:292462 UniProtKB/TrEMBL
NCBI Gene 292462 ENTREZGENE
PANTHER LOW-DENSITY LIPOPROTEIN RECEPTOR-RELATED PROTEIN 11 UniProtKB/TrEMBL
  PTHR46876 UniProtKB/TrEMBL
Pfam K319L-like_PKD UniProtKB/TrEMBL
  Ldl_recept_a UniProtKB/TrEMBL
  MANEC UniProtKB/TrEMBL
PhenoGen Lrp11 PhenoGen
PROSITE LDLRA_1 UniProtKB/TrEMBL
  LDLRA_2 UniProtKB/TrEMBL
  MANSC UniProtKB/TrEMBL
  PKD UniProtKB/TrEMBL
RatGTEx ENSRNOG00000014303 RatGTEx
SMART LDLa UniProtKB/TrEMBL
  MANEC UniProtKB/TrEMBL
Superfamily-SCOP LDL_rcpt_classA_cys-rich UniProtKB/TrEMBL
  SSF49299 UniProtKB/TrEMBL
UniProt A6JP08_RAT UniProtKB/TrEMBL
  F1M753 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Lrp11  LDL receptor related protein 11  LOC108348623  uncharacterized LOC108348623  Data merged from RGD:11485595 737654 PROVISIONAL
2016-08-02 LOC108348623  uncharacterized LOC108348623      Symbol and Name status set to provisional 70820 PROVISIONAL
2015-12-11 Lrp11  LDL receptor related protein 11  Lrp11  low density lipoprotein receptor-related protein 11  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Lrp11  low density lipoprotein receptor-related protein 11   Lrp11_predicted  low density lipoprotein receptor-related protein 11 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Lrp11_predicted  low density lipoprotein receptor-related protein 11 (predicted)      Symbol and Name status set to approved 70820 APPROVED