Lkaaear1 (LKAAEAR motif containing 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Lkaaear1 (LKAAEAR motif containing 1) Rattus norvegicus
Analyze
Symbol: Lkaaear1
Name: LKAAEAR motif containing 1
RGD ID: 1306208
Description: Orthologous to human LKAAEAR1 (LKAAEAR motif containing 1); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; Cuprizon.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical LOC296483; hypothetical protein LOC296483; LOC296483; RGD1306208; uncharacterized protein LOC296483
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
GRCr83189,190,596 - 189,192,279 (-)NCBIGRCr8
mRatBN7.23168,813,087 - 168,814,746 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,813,087 - 168,814,089 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3173,192,504 - 173,193,506 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03182,151,595 - 182,152,597 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03178,814,029 - 178,815,031 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03177,204,834 - 177,206,795 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3177,204,834 - 177,205,836 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,913,365 - 180,914,996 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,848,055 - 170,849,057 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13170,754,090 - 170,754,940 (-)NCBI
Celera3163,773,668 - 163,774,670 (+)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction 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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Lkaaear1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83189,190,596 - 189,192,279 (-)NCBIGRCr8
mRatBN7.23168,813,087 - 168,814,746 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,813,087 - 168,814,089 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3173,192,504 - 173,193,506 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03182,151,595 - 182,152,597 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03178,814,029 - 178,815,031 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03177,204,834 - 177,206,795 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3177,204,834 - 177,205,836 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,913,365 - 180,914,996 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,848,055 - 170,849,057 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13170,754,090 - 170,754,940 (-)NCBI
Celera3163,773,668 - 163,774,670 (+)NCBICelera
Cytogenetic Map3q43NCBI
LKAAEAR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382064,083,376 - 64,084,953 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2064,083,376 - 64,084,398 (-)EnsemblGRCh38hg38GRCh38
GRCh372062,714,729 - 62,716,306 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362062,185,177 - 62,186,156 (-)NCBINCBI36Build 36hg18NCBI36
Celera2059,400,922 - 59,401,901 (-)NCBICelera
Cytogenetic Map20q13.33NCBI
HuRef2059,448,770 - 59,449,749 (-)NCBIHuRef
CHM1_12062,615,749 - 62,616,728 (-)NCBICHM1_1
T2T-CHM13v2.02065,903,431 - 65,905,008 (-)NCBIT2T-CHM13v2.0
Lkaaear1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392181,338,586 - 181,340,235 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2181,338,586 - 181,340,235 (-)EnsemblGRCm39 Ensembl
GRCm382181,696,793 - 181,698,442 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2181,696,793 - 181,698,442 (-)EnsemblGRCm38mm10GRCm38
MGSCv372181,431,500 - 181,433,147 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362181,626,201 - 181,627,848 (-)NCBIMGSCv36mm8
Celera2185,779,120 - 185,780,767 (-)NCBICelera
Cytogenetic Map2H4NCBI
cM Map2103.73NCBI
Lkaaear1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955528176,927 - 179,265 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955528175,380 - 179,265 (+)NCBIChiLan1.0ChiLan1.0
LKAAEAR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22169,899,793 - 69,902,200 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12069,891,804 - 69,894,212 (-)NCBINHGRI_mPanPan1
PanPan1.12061,997,712 - 61,999,702 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2061,997,691 - 61,998,972 (-)Ensemblpanpan1.1panPan2
LKAAEAR1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12447,523,046 - 47,524,276 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2446,657,074 - 46,657,907 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02448,662,810 - 48,663,644 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2448,661,826 - 48,663,703 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12447,507,425 - 47,508,246 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02447,631,850 - 47,632,668 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02448,370,949 - 48,371,784 (-)NCBIUU_Cfam_GSD_1.0
Lkaaear1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640195,804,687 - 195,807,475 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651411,259,567 - 11,260,319 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651411,259,567 - 11,260,399 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LKAAEAR1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1762,899,358 - 62,901,202 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11762,899,343 - 62,901,723 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103242333
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12160,545 - 163,273 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605047,690,620 - 47,692,318 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lkaaear1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474129,707,750 - 29,708,965 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474129,705,320 - 29,710,897 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lkaaear1
1 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:40
Count of miRNA genes:38
Interacting mature miRNAs:40
Transcripts:ENSRNOT00000034209
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
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3161192952169034231Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat


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
5 6 10 57 27 33 8 21 8 6 59 40 44 2 36 25

Sequence


Ensembl Acc Id: ENSRNOT00000034209   ⟹   ENSRNOP00000037730
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,813,087 - 168,814,089 (-)Ensembl
Rnor_6.0 Ensembl3177,204,834 - 177,205,836 (-)Ensembl
RefSeq Acc Id: NM_001106551   ⟹   NP_001100021
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83189,190,596 - 189,191,598 (-)NCBI
mRatBN7.23168,813,087 - 168,814,089 (-)NCBI
Rnor_6.03177,204,834 - 177,205,836 (-)NCBI
Rnor_5.03180,913,365 - 180,914,996 (-)NCBI
RGSC_v3.43170,848,055 - 170,849,057 (-)RGD
Celera3163,773,668 - 163,774,670 (+)RGD
Sequence:
RefSeq Acc Id: XM_006235764   ⟹   XP_006235826
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83189,190,596 - 189,192,279 (-)NCBI
mRatBN7.23168,813,087 - 168,814,746 (-)NCBI
Rnor_6.03177,204,834 - 177,206,795 (-)NCBI
Rnor_5.03180,913,365 - 180,914,996 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039104704   ⟹   XP_038960632
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83189,190,596 - 189,191,980 (-)NCBI
mRatBN7.23168,813,087 - 168,814,275 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001100021 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235826 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960632 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL88681 (Get FASTA)   NCBI Sequence Viewer  
  EDL88682 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000037730.4
RefSeq Acc Id: NP_001100021   ⟸   NM_001106551
- UniProtKB: D3ZIM8 (UniProtKB/TrEMBL),   A6KLX3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235826   ⟸   XM_006235764
- Peptide Label: isoform X2
- UniProtKB: A6KLX4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000037730   ⟸   ENSRNOT00000034209
RefSeq Acc Id: XP_038960632   ⟸   XM_039104704
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZIM8-F1-model_v2 AlphaFold D3ZIM8 1-200 view protein structure

Transcriptome

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

Promoters
RGD ID:13692766
Promoter ID:EPDNEW_R3289
Type:single initiation site
Name:Lkaaear1_1
Description:LKAAEAR motif containing 1
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_6.03177,205,826 - 177,205,886EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306208 AgrOrtholog
BioCyc Gene G2FUF-46261 BioCyc
Ensembl Genes ENSRNOG00000024815 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000034209.5 UniProtKB/TrEMBL
InterPro LKAAEAR UniProtKB/TrEMBL
KEGG Report rno:296483 UniProtKB/TrEMBL
NCBI Gene 296483 ENTREZGENE
PANTHER PROTEIN LKAAEAR1 UniProtKB/TrEMBL
  PTHR35665 UniProtKB/TrEMBL
Pfam LKAAEAR UniProtKB/TrEMBL
PhenoGen Lkaaear1 PhenoGen
RatGTEx ENSRNOG00000024815 RatGTEx
UniProt A6KLX3 ENTREZGENE, UniProtKB/TrEMBL
  A6KLX4 ENTREZGENE, UniProtKB/TrEMBL
  D3ZIM8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-02-13 Lkaaear1  LKAAEAR motif containing 1  RGD1306208  hypothetical LOC296483  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1306208  hypothetical LOC296483   RGD1306208_predicted  hypothetical LOC296483 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1306208_predicted  hypothetical LOC296483 (predicted)  LOC296483_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC296483_predicted  hypothetical LOC296483 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL