Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi3g1v0534500
Transcript ID	LotjaGi3g1v0534500.1
Lotus japonicus genome version	Gifu v1.2
Description	GRAS family transcription factor; TAIR: AT1G50420.1 scarecrow-like 3; Swiss-Prot: sp\|Q9LPR8\|SCL3_ARATH Scarecrow-like protein 3; TrEMBL-Plants: tr\|V7ADC7\|V7ADC7_PHAVU Uncharacterized protein; Found in the gene: LotjaGi3g1v0534500
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr3:95140376..95143623) extracted from Lotus japonicus Gifu genome v1.2.

CAACTAAAAAAAGTTATAGAGTGAGAAAGGGACAAATTTAGAGAGAGAAATAGATAAATTTTCCTTCCAAAAAGGTAAAC CTTCTCACAAATTCCATGCTCCACTGAGGTGTGAGTGAAGGGCAACAAAACAATAAAGACAAAAGGGACCCTTCACGCAT TGTCGACAGCCATGAAGAACAACAAGTCCTTGAAACCAGAGAAACAAACTACTCCAACACACTAAACACTCACTCACTCC GTTTCTGGTTTTTCAGTGTTCCAAGAGGCAAGCCTTGGACTTTTCTTGGGGCTTCTTCTCCCTTTTTCTTCAATTCCAAA ACCCACCAAGGAATCAGCGTTTCCTCGTTTCTGTTGCTTGTTCTCCTTCGTGCTTTCACATGGTTTTGTAGGGTTCCCCT GTAACTGCTTCTTTGTTTTCTTTCTCAATTTGTGGAAAATCTGTTACCCTTTTCATCATTTACTGTAATGAAAACGTTGA AGTTGCTCTGAACGTGAGTTGTGCAGGTTCTTATCTGTTTCTCGTTTTCTTCTTTGTTTGTCCTGTTATGCTTTCCCTTA TAGGATCTATATAAATCAGTTGCAGAGTGTTCTTAGTTTTGCTGTGTGTTTTGCTTTGAACTTGTGTTTTATAATTCCTC ATTCCTTTTCCATATTAGCTTCTTCATTAGTTTTGTTGTTGTTACATGGTAACTTCTTCACCCTTGCCATACTTCTCCAT GATGTCACTTTCTCCTACAACCTTAGGATCCCCAAACCCCTGGCTTAGAGAGCTGAAATCTGAGGAAAGGGGTTTGTACT TAATCCATTTGTTGCTAACTTGTGCAAACCATGTTGCTGCTGGTAGTCTTGAAAATGCAAACACCACACTTGAGCAGATT TCCATGCTTGCTTCCCCTGATGGGGACACTATGCAGCGAATCGCAGCGTATTTCACTGAAGCGCTTGCCGACCGGATACT TAAAACCTGGCCTGGGCTTCATAGAGCCCTCAACTCAACTAGGATGATCTTGGTTTCTGAGGAAATTCTTGTCCAGAAGC TCTTCTTTGAGCTTTTTCCTTTCCTGAAGGTGGGATTTATTCTGACTAATCAGGCTATCATTGAAGCAATGGAAGGAGAG AAGATGATTCATATAATTGATCTCAATGCTGCTGAATCTTCTCAGTGGATTGCTCTCCTCCAGATATTGAGCGCGCGTCC TGAAGGCCCTCCTCATTTGCGAATCACCGGGGTTAATCAGAAGAAAGAGGTTTTGGATCAGATAGCTCATAAACTTATTG AAGAAGCTGAAAAGTTGGATATACCATTCCAGTTCAATCCTGTGGTTAGCAAATTAGAAAACCTTGATTTCGACAAACTT CGTGTGAAAACTGGGGAGGCACTAGCAATAAGCTCTATTCTCCAATTGCATTCTCTTCTGGCATGGGATGATGAAGCAGT GCAGAGAAAATCTCCTCTTCTGTCAAGAAGCTCAAAAGACATGGTTAATGGTTATAACCCTAGTCCGGACTCAACCTCAT CATCACCAGCATCTTTAGCCAATTCAAATTCAATGAATATGGAGAGTTTTCTTAATGCGTTATGGGGATTATCACCAAAG GTCATGGTTGTGACAGAACAAGACTCCAATCATAATGGTTCCACTCTGATGGAGAGGCTGCTAGAATCTCTGTATTCTTA TGCAGCATTGTTTGATTGTTTGGAATCCACTGTCCCAAGAACCTCCTTGGAGAGAATAAAGGTGGAGAAGATGCATTTTG GTGAGGAAATCAAGAACATCATTGCGTGTGAGGGATTTGAAAGAAAGGAGAGGCATGAAAAGCTGGAAAAATGGTTCCAG AGATTTGATTCAGCTGGGTTTGGTAATGTGCCTTTAAGCTATTTTGGGATGTTGCAAGCAAGGAGGTTACTTCAAAGCTA TGGTTGTGAGGGATATAGAATGAGGGAAGAAAATGGTTGTGTAGCAATTTGCTGGCAGGATCGGTCATTGTTTTCAATAT CAGCTTGGAGATCTATGAAGTAAGATAGAATTAGAAGCCAGAATTAGAAGGGTAAAAAATTATAGGGATTAAGTGTTTGG TGGTCTTTTTCTTTCATCTTTTTTCTTTTTATGAAGTGCCTTGTCTTTATGGTAATGATTATTTATCTAGATCAGTTTTT AGATATACTCATATTGCCTTGTAAAACCCCATGATGAAAGAAAATTTGGAATGACAAAAAGAGGAAGGGGAACAGAAAAA AATAGAACATGTAATTCAGGTTCTATTTACAGTTTCATTGTTTACTATTGATCTATGGTTAATTTTATAAACTTCTATAC CTTCACTTGTATTTAGTATCCATGGTCTATTTTTACTCATTTAATTGTTTAGTGTTAAAGTTGATTTTCTATATTTCAGG ATAGATGTTAGGCTCTCTTTAAGCAAATAGAGTAATTGCATATTTGGAAATTCATCTACAATTGATTTTGAAGCCAGAAT CAATACTAGTGAGAAGTTTATACTTTATATGAATAGCTTCTGAGTTTTCAAGTTGATTATAGGGAAATACCAATTCTGTA GAGAATCTAGTTTCTGAGTTCTAATTATTAAAATTGATTATGATGCAAAAGAAGATGAACAAACATGCTATATAAGTTTG CTTCAGTTAGTGGACATGAATGAGTCCTGAAAAGTCATTTCCTCAAGTGTTGTCAAGAATTTTGGTGGTTCATTCCTAAT ACTAATAATAGAAATTGTACAGTTTGTTTATGCTTTTGCTGTTTTGGTCATAGTGACGATTCCCAGATGTCATATTCGGA AGATTAGTAAATTATCATCTGATATTTCATCCAATGGTGATAGATGAACCAGCTGTCTCAATTGCTTTTGACCTTAGTGT AACATGAAGCATATCAGACAGCAAAAGAAAATCATCACTTTCCCAATGTCACTTTTTCTTCTGTTTTGCTTTTTTTTTTT GGGTTGGTATGGTGGTGGCTGTTGGAAAACTGTGGCGTGTAATCAATTCACAAACAATATCTGAAAGAAATTGGATCTGG TAAAGTCTTGTTATTGACCGAATAAGACACTTTTTTGAATGTGCTGAGTGAACACTTGTCAGGGAGTAAGGTAGTGGCAT GTGGAGACTTCTGTGAGCAGCACCTAGAAGAGGAGATTATAACATGGTTGGATCAATTTTTCTTCACTTAAAACTAATTT CAAAAGCTACTAAAAGATTTTTTTTCTAAGAATTGAGTTTGACTTCAG

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CDS sequence (LotjaGi3g1v0534500.1) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGGTAACTTCTTCACCCTTGCCATACTTCTCCATGATGTCACTTTCTCCTACAACCTTAGGATCCCCAAACCCCTGGCT TAGAGAGCTGAAATCTGAGGAAAGGGGTTTGTACTTAATCCATTTGTTGCTAACTTGTGCAAACCATGTTGCTGCTGGTA GTCTTGAAAATGCAAACACCACACTTGAGCAGATTTCCATGCTTGCTTCCCCTGATGGGGACACTATGCAGCGAATCGCA GCGTATTTCACTGAAGCGCTTGCCGACCGGATACTTAAAACCTGGCCTGGGCTTCATAGAGCCCTCAACTCAACTAGGAT GATCTTGGTTTCTGAGGAAATTCTTGTCCAGAAGCTCTTCTTTGAGCTTTTTCCTTTCCTGAAGGTGGGATTTATTCTGA CTAATCAGGCTATCATTGAAGCAATGGAAGGAGAGAAGATGATTCATATAATTGATCTCAATGCTGCTGAATCTTCTCAG TGGATTGCTCTCCTCCAGATATTGAGCGCGCGTCCTGAAGGCCCTCCTCATTTGCGAATCACCGGGGTTAATCAGAAGAA AGAGGTTTTGGATCAGATAGCTCATAAACTTATTGAAGAAGCTGAAAAGTTGGATATACCATTCCAGTTCAATCCTGTGG TTAGCAAATTAGAAAACCTTGATTTCGACAAACTTCGTGTGAAAACTGGGGAGGCACTAGCAATAAGCTCTATTCTCCAA TTGCATTCTCTTCTGGCATGGGATGATGAAGCAGTGCAGAGAAAATCTCCTCTTCTGTCAAGAAGCTCAAAAGACATGGT TAATGGTTATAACCCTAGTCCGGACTCAACCTCATCATCACCAGCATCTTTAGCCAATTCAAATTCAATGAATATGGAGA GTTTTCTTAATGCGTTATGGGGATTATCACCAAAGGTCATGGTTGTGACAGAACAAGACTCCAATCATAATGGTTCCACT CTGATGGAGAGGCTGCTAGAATCTCTGTATTCTTATGCAGCATTGTTTGATTGTTTGGAATCCACTGTCCCAAGAACCTC CTTGGAGAGAATAAAGGTGGAGAAGATGCATTTTGGTGAGGAAATCAAGAACATCATTGCGTGTGAGGGATTTGAAAGAA AGGAGAGGCATGAAAAGCTGGAAAAATGGTTCCAGAGATTTGATTCAGCTGGGTTTGGTAATGTGCCTTTAAGCTATTTT GGGATGTTGCAAGCAAGGAGGTTACTTCAAAGCTATGGTTGTGAGGGATATAGAATGAGGGAAGAAAATGGTTGTGTAGC AATTTGCTGGCAGGATCGGTCATTGTTTTCAATATCAGCTTGGAGATCTATGAAGTAA

Download CDS Sequence

Protein sequence (LotjaGi3g1v0534500.1) extracted from Lotus japonicus Gifu v1.2 Proteins.

MVTSSPLPYFSMMSLSPTTLGSPNPWLRELKSEERGLYLIHLLLTCANHVAAGSLENANTTLEQISMLASPDGDTMQRIA AYFTEALADRILKTWPGLHRALNSTRMILVSEEILVQKLFFELFPFLKVGFILTNQAIIEAMEGEKMIHIIDLNAAESSQ WIALLQILSARPEGPPHLRITGVNQKKEVLDQIAHKLIEEAEKLDIPFQFNPVVSKLENLDFDKLRVKTGEALAISSILQ LHSLLAWDDEAVQRKSPLLSRSSKDMVNGYNPSPDSTSSSPASLANSNSMNMESFLNALWGLSPKVMVVTEQDSNHNGST LMERLLESLYSYAALFDCLESTVPRTSLERIKVEKMHFGEEIKNIIACEGFERKERHEKLEKWFQRFDSAGFGNVPLSYF GMLQARRLLQSYGCEGYRMREENGCVAICWQDRSLFSISAWRSMK

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Domain prediction

Data for domain prediction are obtained with InterProScan, and merged with InterPro data obtained from the EB-eye REST service.

Prediction algorithm	Identifier	Start	End	Length	E-value	InterPro ID
PANTHER	PTHR31636 View details on PTHR31636 Search for proteins/transripts with this domain View external data on PTHR31636	3	444	442	2.8E-215	–
PANTHER	PTHR31636:SF159 View details on PTHR31636:SF159 Search for proteins/transripts with this domain View external data on PTHR31636:SF159	3	444	442	2.8E-215	IPR030008 Show description in modal box View details on IPR030008 Search for proteins/transripts with this domain View on EBI InterPro Service
ProSiteProfiles	PS50985 View details on PS50985 Search for proteins/transripts with this domain View external data on PS50985	30	442	413	83.61	IPR005202 Show description in modal box View details on IPR005202 Search for proteins/transripts with this domain View on EBI InterPro Service
Pfam	PF03514 View details on PF03514 Search for proteins/transripts with this domain View external data on PF03514	39	442	404	2.8E-140	IPR005202 Show description in modal box View details on IPR005202 Search for proteins/transripts with this domain View on EBI InterPro Service
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	263	285	23	-	–

Gene function (GO predictions)

GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on April 27, 2020, while the GO metadata was last updated on April 27, 2020.

GO term	Namespace	Name	Definition	Relationships
GO:0003700 View details of GO:0003700 AmiGO InterPro QuickGO	Molecular function	DNA-binding transcription factor activity	A protein or a member of a complex that interacts selectively and non-covalently with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a gene to modulate transcription. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons.	Subterm of View details of GO:0140110
GO:0005634 View details of GO:0005634 AmiGO InterPro QuickGO	Cellular component	Nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.	Subterm of View details of GO:0043231
GO:0009739 View details of GO:0009739 AmiGO InterPro QuickGO	Biological process	Response to gibberellin	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a gibberellin stimulus.	Subterm of View details of GO:0001101 View details of GO:0009725 View details of GO:0033993 View details of GO:1901700

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Expression data

Expression pattern

Expression pattern of LotjaGi3g1v0534500.1, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi3g1v0534500.1