Lage3 (L antigen family, member 3) - 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 Behavioral & Substance Use Disorder 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: Lage3 (L antigen family, member 3) Rattus norvegicus
Analyze
Symbol: Lage3
Name: L antigen family, member 3
RGD ID: 1562476
Description: Predicted to be located in cytoplasm and nucleus. Predicted to be part of EKC/KEOPS complex. Human ortholog(s) of this gene implicated in Galloway-Mowat syndrome 2. Orthologous to human LAGE3 (L antigen family member 3); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: EKC/KEOPS complex subunit LAGE3; L antigen family member 3; LOC293863; RGD1562476; similar to Eso3 protein
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
GRCr8X157,289,497 - 157,290,920 (-)NCBIGRCr8GRCr8GRCr8
mRatBN7.2X152,138,209 - 152,139,632 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX152,138,218 - 152,139,632 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX154,279,337 - 154,280,760 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X157,842,563 - 157,843,986 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X155,514,361 - 155,515,790 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X156,355,376 - 156,356,799 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX156,355,376 - 156,356,799 (+)Ensemblrn6Rnor6.0
Rnor_5.01152,095,511 - 152,096,934 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X160,253,757 - 160,255,180 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1135,757,019 - 135,758,442 (+)NCBICelera
Cytogenetic MapXq37NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:27903914   PMID:28805828  


Genomics

Comparative Map Data
Lage3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X157,289,497 - 157,290,920 (-)NCBIGRCr8GRCr8GRCr8
mRatBN7.2X152,138,209 - 152,139,632 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX152,138,218 - 152,139,632 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX154,279,337 - 154,280,760 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X157,842,563 - 157,843,986 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X155,514,361 - 155,515,790 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X156,355,376 - 156,356,799 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX156,355,376 - 156,356,799 (+)Ensemblrn6Rnor6.0
Rnor_5.01152,095,511 - 152,096,934 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X160,253,757 - 160,255,180 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1135,757,019 - 135,758,442 (+)NCBICelera
Cytogenetic MapXq37NCBI
LAGE3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X154,477,775 - 154,479,281 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX154,477,775 - 154,479,281 (-)Ensemblhg38GRCh38
GRCh37X153,706,114 - 153,707,620 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X153,358,435 - 153,360,790 (-)NCBIBuild 36Build 36hg18NCBI36
CeleraX153,866,292 - 153,868,647 (-)NCBICelera
Cytogenetic MapXq28NCBI
HuRefX142,282,633 - 142,284,801 (-)NCBIHuRef
CHM1_1X153,616,885 - 153,619,241 (-)NCBICHM1_1
T2T-CHM13v2.0X152,714,284 - 152,715,790 (-)NCBIT2T-CHM13v2.0
Lage3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X73,395,768 - 73,397,224 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX73,394,882 - 73,397,224 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38X74,352,162 - 74,353,618 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX74,351,276 - 74,353,618 (-)Ensemblmm10GRCm38
MGSCv37X71,597,501 - 71,598,957 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X70,604,882 - 70,606,338 (-)NCBIMGSCv36mm8
CeleraX65,605,935 - 65,607,391 (-)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX38.0NCBI
Lage3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955580992,190 - 993,617 (-)Ensembl
ChiLan1.0NW_004955580992,190 - 993,617 (-)NCBIChiLan1.0ChiLan1.0
LAGE3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X154,452,148 - 154,454,230 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X154,455,753 - 154,457,259 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X143,919,519 - 143,921,001 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X153,790,497 - 153,791,581 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX153,790,672 - 153,792,549 (-)EnsemblpanPan2panpan1.1
LAGE3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X122,185,300 - 122,186,498 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X125,326,940 - 125,328,145 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX125,326,944 - 125,328,347 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X121,095,948 - 121,097,132 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X123,611,147 - 123,612,224 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X123,372,790 - 123,373,977 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Lage3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X119,492,159 - 119,494,582 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049368091,229,933 - 1,232,448 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100515685
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11221,086,937 - 21,088,914 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21221,508,394 - 21,510,252 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LAGE3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X128,725,788 - 128,727,565 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606566,714,371 - 66,716,168 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lage3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624946949,343 - 953,362 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624946951,479 - 952,962 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Lage3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1X128,358,559 - 128,359,993 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:39
Count of miRNA genes:38
Interacting mature miRNAs:39
Transcripts:ENSRNOT00000056312
Prediction methods:Miranda, Rnahybrid
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
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX105359969157758123Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X118973754157758123Rat

Markers in Region
AI102991  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map1906.4UniSTS
Cytogenetic MapXq37UniSTS


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 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000078304   ⟹   ENSRNOP00000069114
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX152,138,218 - 152,139,632 (-)Ensembl
Rnor_6.0 EnsemblX156,355,376 - 156,356,799 (+)Ensembl
RefSeq Acc Id: NM_001106345   ⟹   NP_001099815
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X157,289,497 - 157,290,920 (-)NCBI
mRatBN7.2X152,138,209 - 152,139,632 (-)NCBI
Rnor_6.0X156,355,376 - 156,356,799 (+)NCBI
Rnor_5.01152,095,511 - 152,096,934 (+)NCBI
RGSC_v3.4X160,253,757 - 160,255,180 (+)RGD
Celera1135,757,019 - 135,758,442 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001099815 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL84971 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001099815   ⟸   NM_001106345
- UniProtKB: A6KRQ5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000069114   ⟸   ENSRNOT00000078304

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZPW6-F1-model_v2 AlphaFold D3ZPW6 1-148 view protein structure

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:1562476 AgrOrtholog
BioCyc Gene G2FUF-623 BioCyc
Ensembl Genes ENSRNOG00000053456 Ensembl
Gene3D-CATH Alpha-D-phosphohexomutase, C-terminal domain UniProtKB/TrEMBL
InterPro EKC/KEOPS_Pcc1 UniProtKB/TrEMBL
KEGG Report rno:293863 UniProtKB/TrEMBL
NCBI Gene 293863 ENTREZGENE
PANTHER EKC/KEOPS COMPLEX SUBUNIT LAGE3 UniProtKB/TrEMBL
  PTHR31283 UniProtKB/TrEMBL
Pfam Pcc1 UniProtKB/TrEMBL
PhenoGen Lage3 PhenoGen
RatGTEx ENSRNOG00000053456 RatGTEx
UniProt A6KRQ5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-29 Lage3  L antigen family, member 3  RGD1562476_predicted  similar to Eso3 protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1562476_predicted  similar to Eso3 protein (predicted)  LOC293863  similar to Eso3 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC293863  similar to Eso3 protein      Symbol and Name status set to provisional 70820 PROVISIONAL