Lrrc53 (leucine rich repeat containing 53) - Rat Genome Database

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Gene: Lrrc53 (leucine rich repeat containing 53) Rattus norvegicus
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Symbol: Lrrc53
Name: leucine rich repeat containing 53
RGD ID: 7683241
Description: Predicted to be located in membrane. Orthologous to human LRRC53 (leucine rich repeat containing 53); INTERACTS WITH lipopolysaccharide (ortholog); resveratrol (ortholog); S-(1,2-dichlorovinyl)-L-cysteine (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: leucine-rich repeat-containing protein 53; leucine-rich repeat-containing protein 53-like; LOC102555624
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82246,441,139 - 246,467,281 (+)NCBIGRCr8
mRatBN7.22243,781,445 - 243,807,037 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2243,769,297 - 243,803,164 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02261,058,919 - 261,139,463 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02279,721,709 - 279,818,727 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2235,649,404 - 235,729,067 (+)NCBICelera
Cytogenetic Map2q45NCBI
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
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

Genomics

Comparative Map Data
Lrrc53
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82246,441,139 - 246,467,281 (+)NCBIGRCr8
mRatBN7.22243,781,445 - 243,807,037 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2243,769,297 - 243,803,164 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02261,058,919 - 261,139,463 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02279,721,709 - 279,818,727 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2235,649,404 - 235,729,067 (+)NCBICelera
Cytogenetic Map2q45NCBI
LRRC53
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38174,469,376 - 74,537,079 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl174,469,376 - 74,512,611 (-)EnsemblGRCh38hg38GRCh38
GRCh37174,935,060 - 74,978,295 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map1p31.1NCBI
CHM1_1175,050,141 - 75,121,397 (-)NCBICHM1_1
T2T-CHM13v2.0174,310,757 - 74,378,470 (-)NCBIT2T-CHM13v2.0
Gm18589
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393154,543,474 - 154,559,331 (+)NCBIGRCm39GRCm39mm39
GRCm383154,837,837 - 154,853,694 (+)NCBIGRCm38GRCm38mm10GRCm38
MGSCv373154,504,973 - 154,505,551 (+)NCBIGRCm37MGSCv37mm9NCBIm37
Celera3161,300,209 - 161,300,787 (+)NCBICelera
Cytogenetic Map3H4NCBI
cM Map379.32NCBI
Lrrc53
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542318,141,159 - 18,204,497 (+)NCBIChiLan1.0ChiLan1.0
LRRC53
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21152,366,488 - 152,409,857 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11151,526,925 - 151,569,397 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0173,698,516 - 73,741,908 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1 Ensembl175,674,245 - 75,687,706 (-)Ensemblpanpan1.1panPan2
LRRC53
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha674,552,246 - 74,566,681 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0672,480,811 - 72,496,551 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1671,974,634 - 71,990,365 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0671,921,295 - 71,936,976 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0672,416,208 - 72,431,961 (+)NCBIUU_Cfam_GSD_1.0
Lrrc53
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505886,260,241 - 86,280,518 (-)NCBIHiC_Itri_2
LRRC53
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12058,640,427 - 58,693,003 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2058,679,269 - 58,692,748 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603358,755,268 - 58,806,414 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrrc53
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474222,190,672 - 22,208,980 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

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Variants in Lrrc53
176 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2211744537249053267Rat
631563Hcuc3Hepatic copper content QTL 33.87liver copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)2229059610249053267Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2212828222249053267Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2211744537249053267Rat
7411555Bw132Body weight QTL 1320.001body mass (VT:0001259)body weight gain (CMO:0000420)2223389739249053267Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2211744537249053267Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2211744537249053267Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2214226044247136170Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2211744537249053267Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2200990457245990457Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
2293833Kiddil8Kidney dilation QTL 82.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2219753301247136170Rat
2293844Kiddil7Kidney dilation QTL 73.5kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2219753301247136170Rat
9587428Epfw6Epididymal fat weight QTL 67.470.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)2223389739249053267Rat


Expression


Sequence


RefSeq Acc Id: ENSRNOT00000104809   ⟹   ENSRNOP00000095288
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2243,769,297 - 243,803,164 (+)Ensembl
RefSeq Acc Id: XM_039103893   ⟹   XP_038959821
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82246,441,139 - 246,467,281 (+)NCBI
mRatBN7.22243,781,445 - 243,807,037 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038959821 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000095288.1
RefSeq Acc Id: XP_038959821   ⟸   XM_039103893
RefSeq Acc Id: ENSRNOP00000095288   ⟸   ENSRNOT00000104809

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:7683241 AgrOrtholog
BioCyc Gene G2FUF-50731 BioCyc
Ensembl Genes ENSRNOG00000068038 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000104809.1 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
InterPro Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
NCBI Gene LOC102555624 ENTREZGENE
PANTHER ANTIGEN BSP, PUTATIVE-RELATED UniProtKB/TrEMBL
  LEUCINE-RICH REPEAT-CONTAINING PROTEIN 53 UniProtKB/TrEMBL
Pfam LRR_8 UniProtKB/TrEMBL
PhenoGen Lrrc53 PhenoGen
RatGTEx ENSRNOG00000068038 RatGTEx
SMART LRR_TYP UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/TrEMBL
UniProt A0A8I6AMC2_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Lrrc53  leucine rich repeat containing 53  Lrrc53  leucine rich repeat containing 53  Data merged from RGD:149736514 737654 PROVISIONAL
2021-08-09 Lrrc53  leucine rich repeat containing 53      Symbol and Name status set to provisional 45752 PROVISIONAL
2018-09-05 Lrrc53  leucine rich repeat containing 53  LOC102555624  leucine-rich repeat-containing protein 53-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-12-18 LOC102555624  leucine-rich repeat-containing protein 53-like      Symbol and Name status set to provisional 70820 PROVISIONAL