Lrriq3 (leucine-rich repeats and IQ motif containing 3) - Rat Genome Database

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Gene: Lrriq3 (leucine-rich repeats and IQ motif containing 3) Rattus norvegicus
Analyze
Symbol: Lrriq3
Name: leucine-rich repeats and IQ motif containing 3
RGD ID: 1591943
Description: Orthologous to human LRRIQ3 (leucine rich repeats and IQ motif containing 3); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; aconitine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: leucine rich repeat containing 44; leucine-rich repeat and IQ domain-containing protein 3; leucine-rich repeat-containing protein 44; LOC499732; Lrrc44; similar to RIKEN cDNA 4933403H06
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82246,778,759 - 246,871,284 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2246,778,984 - 246,880,668 (+)EnsemblGRCr8
mRatBN7.22244,119,975 - 244,214,590 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2244,126,200 - 244,212,339 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2251,882,192 - 251,974,502 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02249,775,996 - 249,868,305 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02244,716,369 - 244,808,592 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02261,403,040 - 261,499,893 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2261,402,980 - 261,499,891 (+)Ensemblrn6Rnor6.0
Rnor_5.02280,074,848 - 280,166,764 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42252,886,022 - 253,060,065 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2235,979,540 - 236,070,905 (+)NCBICelera
Cytogenetic Map2q45NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
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:12477932  


Genomics

Comparative Map Data
Lrriq3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82246,778,759 - 246,871,284 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2246,778,984 - 246,880,668 (+)EnsemblGRCr8
mRatBN7.22244,119,975 - 244,214,590 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2244,126,200 - 244,212,339 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2251,882,192 - 251,974,502 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02249,775,996 - 249,868,305 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02244,716,369 - 244,808,592 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02261,403,040 - 261,499,893 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2261,402,980 - 261,499,891 (+)Ensemblrn6Rnor6.0
Rnor_5.02280,074,848 - 280,166,764 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42252,886,022 - 253,060,065 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2235,979,540 - 236,070,905 (+)NCBICelera
Cytogenetic Map2q45NCBI
LRRIQ3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38174,026,015 - 74,198,176 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl174,026,015 - 74,198,187 (-)Ensemblhg38GRCh38
GRCh37174,491,699 - 74,663,860 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36174,264,287 - 74,436,459 (-)NCBIBuild 36Build 36hg18NCBI36
Celera172,737,273 - 72,909,434 (-)NCBICelera
Cytogenetic Map1p31.1NCBI
HuRef172,626,631 - 72,798,771 (-)NCBIHuRef
CHM1_1174,607,397 - 74,779,550 (-)NCBICHM1_1
T2T-CHM13v2.0173,867,620 - 74,039,753 (-)NCBIT2T-CHM13v2.0
Lrriq3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393154,799,032 - 154,899,915 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3154,799,071 - 154,899,917 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm383155,093,395 - 155,194,278 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3155,093,434 - 155,194,280 (+)Ensemblmm10GRCm38
MGSCv373154,756,398 - 154,857,242 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv363155,028,832 - 155,129,442 (+)NCBIMGSCv36mm8
Celera3161,551,401 - 161,652,357 (+)NCBICelera
Cytogenetic Map3H4NCBI
cM Map379.54NCBI
Lrriq3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542318,443,825 - 18,585,996 (+)Ensembl
ChiLan1.0NW_00495542318,438,848 - 18,585,627 (+)NCBIChiLan1.0ChiLan1.0
LRRIQ3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21152,681,059 - 152,853,560 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11151,840,235 - 152,012,487 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0173,255,053 - 73,427,257 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1175,231,190 - 75,403,524 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl175,231,191 - 75,389,032 (-)EnsemblpanPan2panpan1.1
LRRIQ3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1672,138,908 - 72,306,371 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl672,157,015 - 72,305,934 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha674,804,564 - 74,974,401 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0672,734,879 - 72,904,691 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl672,752,919 - 72,905,655 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1672,255,897 - 72,425,687 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0672,175,102 - 72,344,990 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0672,670,776 - 72,840,639 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Lrriq3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505885,854,704 - 86,035,216 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365711,365,550 - 1,522,691 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRRIQ3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6138,964,509 - 139,151,925 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.16138,950,285 - 139,152,645 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26128,722,845 - 128,766,240 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LRRIQ3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12058,953,280 - 59,116,252 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603358,332,857 - 58,498,845 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrriq3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474222,479,053 - 22,611,635 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Lrriq3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v136,263,123 - 6,356,258 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Lrriq3
849 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:43
Count of miRNA genes:33
Interacting mature miRNAs:40
Transcripts:ENSRNOT00000012841
Prediction methods: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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2205135267250135267Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2210956252251712708Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2143344967251712708Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2214404877251712708Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2143344967251712708Rat
2293833Kiddil8Kidney dilation QTL 82.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2220274283249795005Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2203664411248664411Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2204795005249795005Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2214404877251712708Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2214404877251712708Rat
2313073Bmd75Bone mineral density QTL 754.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)2218051934251712708Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2214404877251712708Rat
2293844Kiddil7Kidney dilation QTL 73.5kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2220274283249795005Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2151869660251712708Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2196140964251540988Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2205135267250135267Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2214404877251712708Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2205135267250135267Rat


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 10 65 165 91 90 59 79 59 6 338 175 11 144 80 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000012841   ⟹   ENSRNOP00000012841
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2246,778,984 - 246,871,359 (+)Ensembl
mRatBN7.2 Ensembl2244,126,200 - 244,212,339 (+)Ensembl
Rnor_6.0 Ensembl2261,402,980 - 261,499,891 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000095686   ⟹   ENSRNOP00000097180
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2246,785,145 - 246,858,503 (+)Ensembl
mRatBN7.2 Ensembl2244,126,200 - 244,199,554 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000109356   ⟹   ENSRNOP00000076522
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2246,785,145 - 246,829,013 (+)Ensembl
mRatBN7.2 Ensembl2244,126,200 - 244,179,285 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000167705   ⟹   ENSRNOP00000104135
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2246,785,145 - 246,880,668 (+)Ensembl
RefSeq Acc Id: NM_001024307   ⟹   NP_001019478
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82246,778,983 - 246,871,284 (+)NCBI
mRatBN7.22244,120,036 - 244,212,339 (+)NCBI
Rnor_6.02261,403,040 - 261,499,893 (+)NCBI
Rnor_5.02280,074,848 - 280,166,764 (+)NCBI
RGSC_v3.42252,886,022 - 253,060,065 (+)RGD
Celera2235,979,540 - 236,070,905 (+)RGD
Sequence:
RefSeq Acc Id: XM_039102959   ⟹   XP_038958887
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82246,792,134 - 246,871,284 (+)NCBI
mRatBN7.22244,143,853 - 244,214,590 (+)NCBI
RefSeq Acc Id: XM_039102961   ⟹   XP_038958889
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82246,778,759 - 246,828,389 (+)NCBI
mRatBN7.22244,119,975 - 244,173,317 (+)NCBI
RefSeq Acc Id: XM_063282409   ⟹   XP_063138479
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82246,792,144 - 246,871,284 (+)NCBI
RefSeq Acc Id: XM_063282410   ⟹   XP_063138480
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82246,778,759 - 246,854,428 (+)NCBI
RefSeq Acc Id: NP_001019478   ⟸   NM_001024307
- UniProtKB: Q6AYL8 (UniProtKB/Swiss-Prot),   A6HWR0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000012841   ⟸   ENSRNOT00000012841
RefSeq Acc Id: XP_038958889   ⟸   XM_039102961
- Peptide Label: isoform X4
- UniProtKB: A0A8I5ZK36 (UniProtKB/TrEMBL),   A6HWR2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038958887   ⟸   XM_039102959
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000076522   ⟸   ENSRNOT00000109356
Ensembl Acc Id: ENSRNOP00000097180   ⟸   ENSRNOT00000095686
RefSeq Acc Id: XP_063138480   ⟸   XM_063282410
- Peptide Label: isoform X3
- UniProtKB: A0A8I6B5F4 (UniProtKB/TrEMBL),   A6HWR1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063138479   ⟸   XM_063282409
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000104135   ⟸   ENSRNOT00000167705
Protein Domains
IQ   LRRCT

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AYL8-F1-model_v2 AlphaFold Q6AYL8 1-633 view protein structure

Transcriptome

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

Promoters
RGD ID:13691835
Promoter ID:EPDNEW_R2360
Type:initiation region
Name:Lrriq3_1
Description:leucine-rich repeats and IQ motif containing 3
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_6.02261,403,053 - 261,403,113EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1591943 AgrOrtholog
BioCyc Gene G2FUF-50729 BioCyc
Ensembl Genes ENSRNOG00000009555 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000012841 ENTREZGENE
  ENSRNOT00000012841.8 UniProtKB/Swiss-Prot
  ENSRNOT00000095686 ENTREZGENE
  ENSRNOT00000109356 ENTREZGENE
Gene3D-CATH 3.80.10.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7112662 IMAGE-MGC_LOAD
InterPro Leu-rich_rpt UniProtKB/Swiss-Prot
  Leu-rich_rpt_4 UniProtKB/Swiss-Prot
  Leu-rich_rpt_typical-subtyp UniProtKB/Swiss-Prot
  LRR-IQ_domain_protein UniProtKB/Swiss-Prot
  LRR_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:499732 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93895 IMAGE-MGC_LOAD
NCBI Gene 499732 ENTREZGENE
PANTHER LEUCINE-RICH REPEAT AND IQ DOMAIN-CONTAINING PROTEIN 3 UniProtKB/Swiss-Prot
  LEUCINE-RICH REPEAT AND IQ DOMAIN-CONTAINING PROTEIN 3 UniProtKB/Swiss-Prot
Pfam LRR_4 UniProtKB/Swiss-Prot
PhenoGen Lrriq3 PhenoGen
PROSITE LRR UniProtKB/Swiss-Prot
  PS50096 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000009555 RatGTEx
SMART LRR_TYP UniProtKB/Swiss-Prot
Superfamily-SCOP L domain-like UniProtKB/Swiss-Prot
UniProt A0A8I5ZK36 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6B5F4 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LS59_RAT UniProtKB/TrEMBL
  A6HWR0 ENTREZGENE, UniProtKB/TrEMBL
  A6HWR1 ENTREZGENE, UniProtKB/TrEMBL
  A6HWR2 ENTREZGENE, UniProtKB/TrEMBL
  LRIQ3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-18 Lrriq3  leucine-rich repeats and IQ motif containing 3  Lrrc44  leucine rich repeat containing 44  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Lrrc44  leucine rich repeat containing 44  LOC499732  similar to RIKEN cDNA 4933403H06  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC499732  similar to RIKEN cDNA 4933403H06      Symbol and Name status set to provisional 70820 PROVISIONAL