Lefty1 (left right determination factor 1) - Rat Genome Database

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Gene: Lefty1 (left right determination factor 1) Rattus norvegicus
Analyze
Symbol: Lefty1
Name: left right determination factor 1
RGD ID: 1561867
Description: Predicted to enable cytokine activity and nodal binding activity. Predicted to be involved in several processes, including negative regulation of nodal receptor complex assembly; negative regulation of nodal signaling pathway; and regionalization. Predicted to act upstream of or within cell migration involved in gastrulation; negative regulation of cell population proliferation; and response to retinoic acid. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in congenital heart disease. Orthologous to several human genes including LEFTY1 (left-right determination factor 1); PARTICIPATES IN transforming growth factor-beta superfamily mediated signaling pathway; INTERACTS WITH amphetamine; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: left-right determination factor 1; LOC498299; RGD1561867; similar to Stra3 protein
RGD Orthologs
Human
Mouse
Bonobo
Dog
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81395,188,091 - 95,191,488 (+)NCBIGRCr8
mRatBN7.21392,649,226 - 92,659,722 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1392,656,323 - 92,659,720 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1395,161,640 - 95,165,037 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01396,561,569 - 96,564,966 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01393,736,266 - 93,739,663 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01399,212,778 - 99,217,786 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1399,214,389 - 99,217,786 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013104,212,236 - 104,215,633 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41396,664,408 - 96,667,805 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1392,199,283 - 92,202,680 (+)NCBICelera
Cytogenetic Map13q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Lefty1 Ameliorates Post-infarction Fibrosis by Suppressing p-Smad2 and p-ERK1/2 Signaling Pathways. Li CY, etal., J Cardiovasc Transl Res. 2021 Aug;14(4):636-646. doi: 10.1007/s12265-020-10089-2. Epub 2021 Jan 6.
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Lefty-1 inhibits renal epithelial-mesenchymal transition by antagonizing the TGF-β/Smad signaling pathway. Zhang L, etal., J Mol Histol. 2020 Feb;51(1):77-87. doi: 10.1007/s10735-020-09859-8. Epub 2020 Feb 17.
Additional References at PubMed
PMID:9708732   PMID:10500184   PMID:15004567   PMID:15062104   PMID:29286065  


Genomics

Comparative Map Data
Lefty1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81395,188,091 - 95,191,488 (+)NCBIGRCr8
mRatBN7.21392,649,226 - 92,659,722 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1392,656,323 - 92,659,720 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1395,161,640 - 95,165,037 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01396,561,569 - 96,564,966 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01393,736,266 - 93,739,663 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01399,212,778 - 99,217,786 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1399,214,389 - 99,217,786 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013104,212,236 - 104,215,633 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41396,664,408 - 96,667,805 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1392,199,283 - 92,202,680 (+)NCBICelera
Cytogenetic Map13q26NCBI
LEFTY1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381225,886,282 - 225,889,146 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1225,886,282 - 225,911,382 (-)EnsemblGRCh38hg38GRCh38
GRCh371226,073,982 - 226,076,846 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361224,140,605 - 224,143,459 (-)NCBINCBI36Build 36hg18NCBI36
Build 341222,380,717 - 222,383,571NCBI
Celera1199,265,024 - 199,267,877 (-)NCBICelera
Cytogenetic Map1q42.12NCBI
HuRef1196,591,667 - 196,594,530 (-)NCBIHuRef
CHM1_11227,346,296 - 227,349,159 (-)NCBICHM1_1
T2T-CHM13v2.01225,074,031 - 225,076,895 (-)NCBIT2T-CHM13v2.0
Lefty1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391180,762,587 - 180,765,966 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1180,762,587 - 180,765,965 (+)EnsemblGRCm39 Ensembl
GRCm381180,935,022 - 180,938,401 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1180,935,022 - 180,938,400 (+)EnsemblGRCm38mm10GRCm38
MGSCv371182,865,170 - 182,868,532 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361182,771,734 - 182,775,075 (+)NCBIMGSCv36mm8
Celera1187,999,497 - 188,003,975 (+)NCBICelera
Cytogenetic Map1H4NCBI
cM Map184.46NCBI
LOC100969502
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2123,638,440 - 23,651,563 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1123,586,789 - 23,599,910 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01201,347,411 - 201,351,295 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11206,347,974 - 206,351,201 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1206,348,419 - 206,350,787 (-)Ensemblpanpan1.1panPan2
LEFTY1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1738,932,668 - 38,934,989 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha738,414,884 - 38,417,205 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0738,766,526 - 38,768,964 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1738,606,312 - 38,608,748 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0738,614,462 - 38,616,899 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0738,884,233 - 38,886,670 (+)NCBIUU_Cfam_GSD_1.0
LOC100524517
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11013,815,157 - 13,819,249 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21015,951,740 - 15,974,455 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103230001
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1253,881,085 - 3,884,596 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl253,881,837 - 3,884,151 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660553,886,974 - 3,891,002 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Lefty1
26 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:52
Count of miRNA genes:47
Interacting mature miRNAs:51
Transcripts:ENSRNOT00000004354
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
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat

Markers in Region
AU048458  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21392,655,271 - 92,655,497 (+)MAPPERmRatBN7.2
Rnor_6.01399,213,339 - 99,213,563NCBIRnor6.0
Rnor_5.013104,211,186 - 104,211,410UniSTSRnor5.0
RGSC_v3.41396,663,358 - 96,663,582UniSTSRGSC3.4
Cytogenetic Map13q26UniSTS


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
Low 1 2 15
Below cutoff 2 12 26 14 17 14 1 2 10 16 17 6 1

Sequence


RefSeq Acc Id: ENSRNOT00000004354   ⟹   ENSRNOP00000004354
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1392,656,323 - 92,659,720 (+)Ensembl
Rnor_6.0 Ensembl1399,214,389 - 99,217,786 (+)Ensembl
RefSeq Acc Id: NM_001109080   ⟹   NP_001102550
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,188,091 - 95,191,488 (+)NCBI
mRatBN7.21392,656,323 - 92,659,720 (+)NCBI
Rnor_6.01399,214,389 - 99,217,786 (+)NCBI
Rnor_5.013104,212,236 - 104,215,633 (+)NCBI
RGSC_v3.41396,664,408 - 96,667,805 (+)RGD
Celera1392,199,283 - 92,202,680 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001102550 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL94838 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004354
  ENSRNOP00000004354.3
RefSeq Acc Id: NP_001102550   ⟸   NM_001109080
- Peptide Label: precursor
- UniProtKB: D4A670 (UniProtKB/TrEMBL),   A6JGI2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004354   ⟸   ENSRNOT00000004354
Protein Domains
TGF-beta family profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A670-F1-model_v2 AlphaFold D4A670 1-368 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:1561867 AgrOrtholog
BioCyc Gene G2FUF-17108 BioCyc
Ensembl Genes ENSRNOG00000003263 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004354 ENTREZGENE
  ENSRNOT00000004354.6 UniProtKB/TrEMBL
Gene3D-CATH 2.10.90.10 UniProtKB/TrEMBL
  2.60.120.970 UniProtKB/TrEMBL
InterPro Cystine-knot_cytokine UniProtKB/TrEMBL
  LRDF UniProtKB/TrEMBL
  TGF-b_C UniProtKB/TrEMBL
  TGF-b_N UniProtKB/TrEMBL
  TGF-beta-rel UniProtKB/TrEMBL
  TGFb_CS UniProtKB/TrEMBL
KEGG Report rno:498299 UniProtKB/TrEMBL
NCBI Gene 498299 ENTREZGENE
PANTHER LEFT-RIGHT DETERMINATION FACTOR 1 UniProtKB/TrEMBL
  TGFbeta UniProtKB/TrEMBL
Pfam TGF_beta UniProtKB/TrEMBL
  TGFb_propeptide UniProtKB/TrEMBL
PhenoGen Lefty1 PhenoGen
PIRSF TGFb4 UniProtKB/TrEMBL
PRINTS TGFBETA4 UniProtKB/TrEMBL
PROSITE TGF_BETA_1 UniProtKB/TrEMBL
  TGF_BETA_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003263 RatGTEx
SMART TGFB UniProtKB/TrEMBL
Superfamily-SCOP SSF57501 UniProtKB/TrEMBL
UniProt A6JGI2 ENTREZGENE, UniProtKB/TrEMBL
  D4A670 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-29 Lefty1  left right determination factor 1  RGD1561867_predicted  similar to Stra3 protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1561867_predicted  similar to Stra3 protein (predicted)  LOC498299  similar to Stra3 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498299  similar to Stra3 protein      Symbol and Name status set to provisional 70820 PROVISIONAL