Lats1 (large tumor suppressor kinase 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   new 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
Gene: Lats1 (large tumor suppressor kinase 1) Rattus norvegicus
Analyze
Symbol: Lats1
Name: large tumor suppressor kinase 1
RGD ID: 1564085
Description: Predicted to enable several functions, including ion binding activity; nuclear estrogen receptor binding activity; and protein kinase binding activity. Predicted to be involved in several processes, including mitotic cell cycle phase transition; regulation of protein metabolic process; and regulation of signal transduction. Predicted to act upstream of or within inner cell mass cell differentiation; keratinocyte differentiation; and protein localization. Predicted to be active in spindle pole. Orthologous to human LATS1 (large tumor suppressor kinase 1); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC308265; LATS, large tumor suppressor, homolog 1; LATS, large tumor suppressor, homolog 1 (Drosophila); LOC308265; RGD1564085; serine/threonine-protein kinase LATS1; similar to LATS homolog 1
RGD Orthologs
Human
Mouse
Chinchilla
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
GRCr813,980,801 - 4,014,029 (+)NCBIGRCr8
mRatBN7.212,160,411 - 2,193,640 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl12,160,411 - 2,193,640 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx11,810,213 - 1,843,494 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.017,810,609 - 7,843,890 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.012,092,310 - 2,125,592 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.011,784,078 - 1,817,310 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl11,784,078 - 1,817,310 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013,480,828 - 3,514,060 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.412,375,233 - 2,383,106 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1708,453 - 741,716 (+)NCBICelera
Cytogenetic Map1p13NCBI
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

Cellular Component
cytoplasm  (ISO)
glutamatergic synapse  (EXP,IDA,IMP)
postsynapse  (IDA,IMP)
spindle pole  (IBA,ISO)

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. The polarity protein Angiomotin p130 controls dendritic spine maturation. Wigerius M, etal., J Cell Biol. 2018 Feb 5;217(2):715-730. doi: 10.1083/jcb.201705184. Epub 2018 Jan 9.
Additional References at PubMed
PMID:9988268   PMID:9988269   PMID:10518011   PMID:15122335   PMID:15220930   PMID:18369314   PMID:19289085   PMID:19927127   PMID:20412773   PMID:23824537   PMID:28068668   PMID:30241940  
PMID:37930731  


Genomics

Comparative Map Data
Lats1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr813,980,801 - 4,014,029 (+)NCBIGRCr8
mRatBN7.212,160,411 - 2,193,640 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl12,160,411 - 2,193,640 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx11,810,213 - 1,843,494 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.017,810,609 - 7,843,890 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.012,092,310 - 2,125,592 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.011,784,078 - 1,817,310 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl11,784,078 - 1,817,310 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013,480,828 - 3,514,060 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.412,375,233 - 2,383,106 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1708,453 - 741,716 (+)NCBICelera
Cytogenetic Map1p13NCBI
LATS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386149,658,153 - 149,718,101 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6149,658,153 - 149,718,105 (-)EnsemblGRCh38hg38GRCh38
GRCh376149,979,289 - 150,039,237 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366150,023,744 - 150,081,085 (-)NCBINCBI36Build 36hg18NCBI36
Build 346150,023,743 - 150,131,506NCBI
Celera6150,717,306 - 150,774,645 (-)NCBICelera
Cytogenetic Map6q25.1NCBI
HuRef6147,545,928 - 147,605,163 (-)NCBIHuRef
CHM1_16150,243,964 - 150,304,031 (-)NCBICHM1_1
T2T-CHM13v2.06150,857,942 - 150,917,878 (-)NCBIT2T-CHM13v2.0
Lats1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39107,556,964 - 7,592,225 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl107,556,978 - 7,592,224 (+)EnsemblGRCm39 Ensembl
GRCm38107,681,200 - 7,716,461 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl107,681,214 - 7,716,460 (+)EnsemblGRCm38mm10GRCm38
MGSCv37107,401,007 - 7,436,259 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36107,371,399 - 7,403,706 (+)NCBIMGSCv36mm8
Celera107,558,767 - 7,594,190 (+)NCBICelera
Cytogenetic Map10A1NCBI
cM Map102.29NCBI
Lats1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543911,559,657 - 11,611,660 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543911,559,655 - 11,611,287 (+)NCBIChiLan1.0ChiLan1.0
LATS1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1140,430,096 - 40,475,193 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl140,260,064 - 40,457,609 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha141,279,729 - 41,298,611 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0140,610,288 - 40,657,158 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl140,610,379 - 40,637,809 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1140,498,195 - 40,517,078 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0140,363,168 - 40,382,087 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0140,704,342 - 40,723,233 (-)NCBIUU_Cfam_GSD_1.0
Lats1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946135,353,630 - 135,397,886 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364892,605,195 - 2,649,879 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364892,607,114 - 2,649,879 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LATS1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl116,274,970 - 16,320,604 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1116,274,955 - 16,320,980 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2118,600,766 - 18,633,991 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LATS1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11321,901,153 - 21,966,227 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1321,919,280 - 21,967,117 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040197,931,430 - 197,990,883 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lats1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247858,369,922 - 8,408,919 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247858,356,238 - 8,405,877 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lats1
106 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:29
Count of miRNA genes:23
Interacting mature miRNAs:29
Transcripts:ENSRNOT00000020098
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
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1124744506Rat
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128736750Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1132356093Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1132356093Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)1132356093Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1165833076Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)150910843284926Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)150910843284926Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)150910843284926Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat

Markers in Region
AW208599  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.212,193,367 - 2,193,481 (+)MAPPERmRatBN7.2
Rnor_6.011,817,038 - 1,817,151NCBIRnor6.0
Rnor_5.013,513,788 - 3,513,901UniSTSRnor5.0
RGSC_v3.412,385,864 - 2,385,977UniSTSRGSC3.4
Celera1741,444 - 741,557UniSTS
Cytogenetic Map1p13UniSTS


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 3 29 34 18 19 18 1 1 74 34 39 11 1
Low 14 23 23 23 7 10 1 2 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020098   ⟹   ENSRNOP00000020098
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl12,160,411 - 2,193,640 (+)Ensembl
Rnor_6.0 Ensembl11,784,078 - 1,817,310 (+)Ensembl
RefSeq Acc Id: NM_001134543   ⟹   NP_001128015
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,980,801 - 4,014,029 (+)NCBI
mRatBN7.212,160,411 - 2,193,640 (+)NCBI
Rnor_6.011,784,078 - 1,817,310 (+)NCBI
Rnor_5.013,480,828 - 3,514,060 (+)NCBI
RGSC_v3.412,375,233 - 2,383,106 (+)RGD
Celera1708,453 - 741,716 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039110891   ⟹   XP_038966819
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,988,488 - 4,014,029 (+)NCBI
mRatBN7.212,167,798 - 2,193,640 (+)NCBI
RefSeq Acc Id: XM_039110894   ⟹   XP_038966822
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,980,897 - 4,014,029 (+)NCBI
mRatBN7.212,160,507 - 2,193,640 (+)NCBI
RefSeq Acc Id: XM_063288618   ⟹   XP_063144688
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,988,157 - 4,014,029 (+)NCBI
RefSeq Acc Id: XM_063288621   ⟹   XP_063144691
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813,988,193 - 4,002,067 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001128015   ⟸   NM_001134543
- UniProtKB: F1M2K4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000020098   ⟸   ENSRNOT00000020098
RefSeq Acc Id: XP_038966822   ⟸   XM_039110894
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038966819   ⟸   XM_039110891
- Peptide Label: isoform X1
- UniProtKB: F1M2K4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063144688   ⟸   XM_063288618
- Peptide Label: isoform X1
- UniProtKB: F1M2K4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063144691   ⟸   XM_063288621
- Peptide Label: isoform X3
Protein Domains
AGC-kinase C-terminal   Protein kinase   UBA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M2K4-F1-model_v2 AlphaFold F1M2K4 1-1130 view protein structure

Transcriptome

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

Promoters
RGD ID:13689480
Promoter ID:EPDNEW_R4
Type:multiple initiation site
Name:Lats1_1
Description:large tumor suppressor kinase 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_6.011,784,059 - 1,784,119EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564085 AgrOrtholog
BioCyc Gene G2FUF-62451 BioCyc
Ensembl Genes ENSRNOG00000014916 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020098 ENTREZGENE
  ENSRNOT00000020098.8 UniProtKB/TrEMBL
Gene3D-CATH DNA helicase RuvA subunit, C-terminal domain UniProtKB/TrEMBL
  Transferase(Phosphotransferase) domain 1 UniProtKB/TrEMBL
InterPro AGC-kinase_C UniProtKB/TrEMBL
  Kinase-like_dom UniProtKB/TrEMBL
  LATS1-like_MobB UniProtKB/TrEMBL
  LATS1_STKc UniProtKB/TrEMBL
  Pkinase_C UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/TrEMBL
  UBA-like UniProtKB/TrEMBL
  UBA/transl_elong_EF1B_N_euk UniProtKB/TrEMBL
KEGG Report rno:308265 UniProtKB/TrEMBL
NCBI Gene 308265 ENTREZGENE
PANTHER PTHR24356:SF138 UniProtKB/TrEMBL
  SERINE/THREONINE-PROTEIN KINASE UniProtKB/TrEMBL
Pfam Pkinase UniProtKB/TrEMBL
  Pkinase_C UniProtKB/TrEMBL
  UBA UniProtKB/TrEMBL
PhenoGen Lats1 PhenoGen
PROSITE AGC_KINASE_CTER UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/TrEMBL
  UBA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000014916 RatGTEx
SMART S_TKc UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/TrEMBL
  UBA_like UniProtKB/TrEMBL
UniProt F1M2K4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-01 Lats1  large tumor suppressor kinase 1  Lats1  LATS, large tumor suppressor, homolog 1 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-07 Lats1  LATS, large tumor suppressor, homolog 1 (Drosophila)  RGD1564085  similar to LATS homolog 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564085  similar to LATS homolog 1   RGD1564085_predicted  similar to LATS homolog 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564085_predicted  similar to LATS homolog 1 (predicted)  LOC308265  similar to LATS homolog 1  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC308265  similar to LATS homolog 1      Symbol and Name status set to provisional 70820 PROVISIONAL