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
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82246,778,759 - 246,871,284 (+)NCBIGRCr8
mRatBN7.22244,119,975 - 244,214,590 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2244,126,200 - 244,212,339 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2251,882,192 - 251,974,502 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02249,775,996 - 249,868,305 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02244,716,369 - 244,808,592 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02261,403,040 - 261,499,893 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2261,402,980 - 261,499,891 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02280,074,848 - 280,166,764 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42252,886,022 - 253,060,065 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2235,979,540 - 236,070,905 (+)NCBICelera
Cytogenetic Map2q45NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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 (+)NCBIGRCr8
mRatBN7.22244,119,975 - 244,214,590 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2244,126,200 - 244,212,339 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2251,882,192 - 251,974,502 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02249,775,996 - 249,868,305 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02244,716,369 - 244,808,592 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02261,403,040 - 261,499,893 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2261,402,980 - 261,499,891 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02280,074,848 - 280,166,764 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42252,886,022 - 253,060,065 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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 (-)EnsemblGRCh38hg38GRCh38
GRCh37174,491,699 - 74,663,860 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36174,264,287 - 74,436,459 (-)NCBINCBI36Build 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 Ensembl
GRCm383155,093,395 - 155,194,278 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3155,093,434 - 155,194,280 (+)EnsemblGRCm38mm10GRCm38
MGSCv373154,756,398 - 154,857,242 (+)NCBIGRCm37MGSCv37mm9NCBIm37
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 (+)EnsemblChiLan1.0
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 (-)Ensemblpanpan1.1panPan2
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha674,804,564 - 74,974,401 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0672,734,879 - 72,904,691 (+)NCBIROS_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_1.0
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 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
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_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lrriq3
813 total Variants
miRNA Target Status

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 (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


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 7
Low 1 18 30 14 18 14 4 5 33 32 33 11 4
Below cutoff 2 24 27 27 1 27 4 4 41 3 1 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000012841   ⟹   ENSRNOP00000012841
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2244,126,200 - 244,212,339 (+)Ensembl
Rnor_6.0 Ensembl2261,402,980 - 261,499,891 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000095686   ⟹   ENSRNOP00000097180
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2244,126,200 - 244,199,554 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109356   ⟹   ENSRNOP00000076522
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2244,126,200 - 244,179,285 (+)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
Reference Protein Sequences
RefSeq Acc Id: NP_001019478   ⟸   NM_001024307
- UniProtKB: Q6AYL8 (UniProtKB/Swiss-Prot),   A6HWR0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq 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
RefSeq Acc Id: ENSRNOP00000076522   ⟸   ENSRNOT00000109356
RefSeq Acc Id: ENSRNOP00000097180   ⟸   ENSRNOT00000095686
RefSeq Acc Id: XP_063138480   ⟸   XM_063282410
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063138479   ⟸   XM_063282409
- Peptide Label: isoform X1
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, UniProtKB/TrEMBL
  ENSRNOG00055028675 UniProtKB/Swiss-Prot
  ENSRNOG00060001756 UniProtKB/Swiss-Prot
  ENSRNOG00065002579 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000012841 ENTREZGENE
  ENSRNOT00000012841.8 UniProtKB/Swiss-Prot
  ENSRNOT00000095686.1 UniProtKB/TrEMBL
  ENSRNOT00000109356.1 UniProtKB/TrEMBL
  ENSRNOT00055049685 UniProtKB/Swiss-Prot
  ENSRNOT00060002733 UniProtKB/Swiss-Prot
  ENSRNOT00065003417 UniProtKB/Swiss-Prot
Gene3D-CATH 3.80.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7112662 IMAGE-MGC_LOAD
InterPro IQ_motif_EF-hand-BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Leu-rich_rpt_4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:499732 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
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
  LEUCINE-RICH REPEAT AND IQ DOMAIN-CONTAINING PROTEIN 3 UniProtKB/TrEMBL
  LEUCINE-RICH REPEAT AND IQ DOMAIN-CONTAINING PROTEIN 3 UniProtKB/TrEMBL
Pfam LRR_4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lrriq3 PhenoGen
PROSITE LRR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PS50096 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009555 RatGTEx
  ENSRNOG00055028675 RatGTEx
  ENSRNOG00060001756 RatGTEx
  ENSRNOG00065002579 RatGTEx
SMART LRR_TYP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZK36 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6B5F4_RAT UniProtKB/TrEMBL
  A6HWR0 ENTREZGENE, UniProtKB/TrEMBL
  A6HWR1_RAT 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