Lrrc73 (leucine rich repeat containing 73) - Rat Genome Database

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Gene: Lrrc73 (leucine rich repeat containing 73) Rattus norvegicus
Analyze
Symbol: Lrrc73
Name: leucine rich repeat containing 73
RGD ID: 1561390
Description: Orthologous to human LRRC73 (leucine rich repeat containing 73); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC501101; leucine-rich repeat-containing protein 73; NOD3-like protein; nod3l; uncharacterized protein C6orf154 homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
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
mRatBN7.2914,726,157 - 14,730,144 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl914,726,158 - 14,729,158 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx923,310,400 - 23,313,401 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0928,372,557 - 28,375,892 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0926,673,788 - 26,676,789 (-)NCBIRnor_WKY
Rnor_6.0917,111,176 - 17,115,249 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl917,111,177 - 17,114,177 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0916,007,853 - 16,010,854 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4910,288,726 - 10,291,727 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera912,473,479 - 12,476,480 (-)NCBICelera
Cytogenetic Map9q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:19103603  


Genomics

Comparative Map Data
Lrrc73
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2914,726,157 - 14,730,144 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl914,726,158 - 14,729,158 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx923,310,400 - 23,313,401 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0928,372,557 - 28,375,892 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0926,673,788 - 26,676,789 (-)NCBIRnor_WKY
Rnor_6.0917,111,176 - 17,115,249 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl917,111,177 - 17,114,177 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0916,007,853 - 16,010,854 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4910,288,726 - 10,291,727 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera912,473,479 - 12,476,480 (-)NCBICelera
Cytogenetic Map9q12NCBI
LRRC73
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38643,506,968 - 43,510,346 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl643,506,968 - 43,510,346 (-)EnsemblGRCh38hg38GRCh38
GRCh37643,474,706 - 43,478,084 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36643,582,685 - 43,586,402 (-)NCBINCBI36Build 36hg18NCBI36
Celera645,026,328 - 45,030,045 (-)NCBICelera
Cytogenetic Map6p21.1NCBI
HuRef643,192,739 - 43,196,116 (-)NCBIHuRef
CHM1_1643,477,835 - 43,481,213 (-)NCBICHM1_1
T2T-CHM13v2.0643,335,707 - 43,339,085 (-)NCBIT2T-CHM13v2.0
Lrrc73
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391746,564,606 - 46,568,242 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1746,564,457 - 46,568,241 (+)EnsemblGRCm39 Ensembl
GRCm381746,254,165 - 46,257,316 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1746,253,531 - 46,257,315 (+)EnsemblGRCm38mm10GRCm38
MGSCv371746,391,114 - 46,394,265 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361745,717,565 - 45,720,897 (+)NCBIMGSCv36mm8
Celera1749,687,303 - 49,690,415 (+)NCBICelera
Cytogenetic Map17CNCBI
Lrrc73
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554379,337,538 - 9,340,360 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554379,337,538 - 9,340,360 (-)NCBIChiLan1.0ChiLan1.0
LRRC73
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1644,390,150 - 44,393,531 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl644,390,150 - 44,393,531 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0643,099,036 - 43,102,493 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
LRRC73
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11211,969,115 - 11,971,858 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1211,969,142 - 11,971,854 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1211,995,324 - 11,998,148 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01212,452,751 - 12,455,575 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1212,452,778 - 12,455,560 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11211,978,177 - 11,981,001 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01212,065,066 - 12,067,890 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01212,158,558 - 12,161,382 (-)NCBIUU_Cfam_GSD_1.0
Lrrc73
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494647,462,814 - 47,465,644 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647616,494,558 - 16,497,384 (+)EnsemblSpeTri2.0
SpeTri2.0NW_00493647616,494,564 - 16,497,388 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRRC73
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl738,501,970 - 38,504,917 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1738,499,381 - 38,504,803 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2744,083,021 - 44,086,361 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LRRC73
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11728,651,715 - 28,652,434 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1728,649,100 - 28,652,163 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604443,562,363 - 43,567,652 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrrc73
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475416,135,274 - 16,138,073 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475416,135,206 - 16,138,079 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lrrc73
7 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:149
Count of miRNA genes:110
Interacting mature miRNAs:122
Transcripts:ENSRNOT00000061185
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat

Markers in Region
RH142084  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2914,726,279 - 14,726,475 (+)MAPPERmRatBN7.2
Rnor_6.0917,111,299 - 17,111,494NCBIRnor6.0
Rnor_5.0916,007,976 - 16,008,171UniSTSRnor5.0
RGSC_v3.4910,288,849 - 10,289,044UniSTSRGSC3.4
Celera912,473,602 - 12,473,797UniSTS
RH 3.4 Map961.9UniSTS
Cytogenetic Map9q12UniSTS


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 appendage
High
Medium 50 7
Low 2 3 4 6 1 1 24 17 27 6 1
Below cutoff 1 40 23 11 13 11 7 10 18 7 5 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000061185   ⟹   ENSRNOP00000057899
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl914,726,158 - 14,729,158 (-)Ensembl
Rnor_6.0 Ensembl917,111,177 - 17,114,177 (-)Ensembl
RefSeq Acc Id: NM_001024360   ⟹   NP_001019531
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2914,726,157 - 14,729,158 (-)NCBI
Rnor_6.0917,111,176 - 17,114,177 (-)NCBI
Rnor_5.0916,007,853 - 16,010,854 (-)NCBI
RGSC_v3.4910,288,726 - 10,291,727 (-)RGD
Celera912,473,479 - 12,476,480 (-)RGD
Sequence:
RefSeq Acc Id: XM_008766878   ⟹   XP_008765100
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2914,726,157 - 14,730,144 (-)NCBI
Rnor_6.0917,111,176 - 17,115,249 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039084064   ⟹   XP_038939992
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2914,726,157 - 14,728,925 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001019531   ⟸   NM_001024360
- UniProtKB: A1A5L6 (UniProtKB/Swiss-Prot),   Q587K4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008765100   ⟸   XM_008766878
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000057899   ⟸   ENSRNOT00000061185
RefSeq Acc Id: XP_038939992   ⟸   XM_039084064
- Peptide Label: isoform X2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q587K4-F1-model_v2 AlphaFold Q587K4 1-316 view protein structure

Transcriptome

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

Promoters
RGD ID:13696528
Promoter ID:EPDNEW_R7051
Type:single initiation site
Name:Lrrc73_1
Description:leucine rich repeat containing 73
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_6.0917,114,256 - 17,114,316EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561390 AgrOrtholog
BioCyc Gene G2FUF-28212 BioCyc
Ensembl Genes ENSRNOG00000039856 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000057899 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000061185 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.80.10.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7133504 IMAGE-MGC_LOAD
InterPro LRR_dom_sf UniProtKB/Swiss-Prot
  LRRC73 UniProtKB/Swiss-Prot
KEGG Report rno:501101 UniProtKB/Swiss-Prot
MGC_CLONE MGC:156522 IMAGE-MGC_LOAD
NCBI Gene 501101 ENTREZGENE
PANTHER PTHR24111:SF2 UniProtKB/Swiss-Prot
PhenoGen Lrrc73 PhenoGen
UniProt A1A5L6 ENTREZGENE
  LRC73_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A1A5L6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-12-06 Lrrc73  leucine rich repeat containing 73  nod3l  NOD3-like protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 nod3l  NOD3-like protein      Symbol and Name status set to provisional 70820 PROVISIONAL