Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi1g1v0687400
Transcript ID	LotjaGi1g1v0687400.2
Related isoforms 2	LotjaGi1g1v0687400.1 LotjaGi1g1v0687400.3
Lotus japonicus genome version	Gifu v1.2
Description	E3 ubiquitin-protein ligase RFWD3; TAIR: AT5G03450.1 Transducin/WD40 repeat-like superfamily protein; Swiss-Prot: sp\|Q6PCD5\|RFWD3_HUMAN E3 ubiquitin-protein ligase RFWD3; TrEMBL-Plants: tr\|V7CZT3\|V7CZT3_PHAVU Uncharacterized protein; Found in the gene: LotjaGi1g1v0687400
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr1:125464488..125468489) extracted from Lotus japonicus Gifu genome v1.2.

AAGCCTTTCTATTTTGATCTTTCTAGAATTTTTCATGTGGTTGAGATAATTTTACTTTGTTAGCTTTGTCTTGTTGAGTA ACACTTTTTGGCGACAGAGATATGAACGTGGTAATCATCTTTCAAGAACGTGGCAATCTGAACTGATGGATGGCAATGTG TATTCTGAACAGAGATATGAACGTGGTAATCATCTTTCAAGAATTCAGATGACAGATATTCACCTCATAAGATTTGTCTT TATTTGCTTACCCCCTTTCCCTTTTCCTTTCAACAACAAAAGAATATATTTGAAGTTAATTTTATTGAGTACATTGACTC TTATGTTGCATGTATCTTGTAGAGCACAACCAGGGCCCGAAGTCCCATGAAAAAAAACCGTTTTGCAATTTTAAATGTCA GGTATTCCATTCTCTCTATTATCTACTTTGTGGCTCCATGTAATTTAATTCCCATGTGATTTTTTCCCCAAATGTCAAGA ATATACTCCATGTAATCAAGATTGTTTTGTTAAGTATTGTTATATGGTGTGGTAATTGTTTCACAATTTCTAGAATGTGT TACGTGTGGATGGTGCACGTCTATTTGATATGGACACTTCTAATGATGTTCTATTAATAGCACGAAAACCAAAAGCATTC GGTGGAGTACAATTGCTAACCAAAGTAAGATTCTTGAATTTGAAATATTTGTGTATATGTTTGGGGCTTTTGTACCTCTT TATACAATGAATGATTTCACTTTAACCTTTATGGAAACTTGTCTTTGTAGATGAGCTTGATATCTCCATTTGAGATGGAG GATATCTTTTTGTCTTCCACTACATGTGCTATTAGAGACCTGCATATTTCTCCTTCTAACAGTAGACTGGCTCTCTATGC TTCAGAAGGGAAGAAATTATCAGTGCTCAGGTATTATTGCATCAAGTTCTTATTCATTTGTTTAACACAGTAAGGCTTGG TCGTTGATGTATTTTTCATATTATTACAGCTTGGACAGTAGCGACATTGTTGTCAATTATCGTCTACAGGTAGAAGTTTG ATCCTTTATTAGTAGAAATAAAACTGTTAGTTATAGTTTATAATTGTTTTGCTTTATGGCTTGTCAGAATTAGAATATTA TTGCTTATAGCTTTTTATTTTTATTATTAATATGAAAAAATGTTGAGTAAACAATATCATCATTGAATTAAGTAAAAGAG AACAAAAAAGAAGAGCTATGAAGATAGCACTTCATTAAAGTGGAGTTAGCCATACTCTTTGCATAATTGCATGTTTTCTG AAGACTATCTTCCGAAGTACTTGTTAGACGAGCATTAAAAATAAATTAAGAAAACCACTTTATCCCATAAAGGGTGGTGT TTTAACTTGTAAGTAGCTATGCTGAAAATTCTATCATTTCTCTCCAACCTTACGACCAAATAGCAGGCATATAGGGCACT GCAACAGGATTTTGCTCTTTCTGGTTCCCACAAAACCTCAAAAACAACTTAACAAAATGGTTCCAACTAATAGAAATAGA GTTTGATAATAGTTTTTTCCATGTCTTTTTCCCCCTTTTGTACTAATGTTATTGCTTAAACCTCGCATTCTATCATAAGT TAGTCAGTTCAAGGACTTATACCTTTGTTGGAATTGCATTTCAGAATCCTGCTTGGTCATGCTCATGGGATCTCAACAGT ACGAATTATATATATGCGGGACTACAGGTAAGCACCTTGTTTTTTTGTATTTTCATGGATTTAGGAACCTAAAATGCTAA TCTTAATGTAACTTTCCGGCAGAATGGATCTGTGATGGTGTTTGATATGCGCCAAACTTCAGGACCTTTAAAATCTTTAG TTGGGTTGACTAGCTACCCTGTTCACACTGTACAATCTCTTTCACAAACTTCAAGCCTTCATTCTGATGCTAGAACCGTC CTATCCGCATCTGCCAGTGGCATTTGTCAGTGGAACATTGATTCTGAAGATCGGTAGGCTGTTTACATTTTATGGATATT AGCTTTTGCTTTATTATCAATGCCTTATAAATAGCATGTTCAGCTTTTCCTGGTTAACACTTACTATCCCGCAAAATTTG AAACTTCTTTCCAGTTTTCTATAGTAGACTGTTGGTGTGCGTGGGTGTTCACATGTTTGTATAATTAGAGTAATCAGAAT CTTTTTTTTCCAACTTATGCTGCCACTAGGAAAAAATGTACATTTTCCACCTCTTTGGGTGCATCTTTTGTACCTTCCCA TGTTATATTCTTTTGCGTTTTAGAAATTTATATATTACTTAATTATGAACTAAAGTTTGTTCTTCACTCTGAACAAACTT CTGATATTTCATACCGCATTTAGAGTTTTTTGAATGTTTTTTTTTCATGCTCTATTTTTCGCTGCTCTAATTAAGTCTCC TGATTCTCCATTTTTTTAAAAAAATTATGAAGGCCGATTGTGGTTCCTGAAACTGACAATCAAGGAGAGTGTATTTCCCT TGCCTATTGCTCTAGTAGTGATCACATTGTTGGTTCCTACCGTCCAAAGTATGACAAGTCAAAGGACTATCCAATGTTTG ATATGTCGAAGGACCGCCAAATATTTGACATGTCGGAGGGTGTGCCTCTTTCTCCACCATTGCCTACTCCTCAAGTTACT GTACAACGAGACCGGTGCTCTCATGTCTTGTACAAGGGAATGGGCAGTCATGATTTCCAGAAGATGGGTTACACATATGG CAATTTATGGAAAGATCGACTGCCAAAATGTGCAGTTATAGACATGAAGAATCAGGGTACATTCTTTGCATCTGGAGATC AATTTTCAAGGGATTTGCTCTTGTATGAGTTGCCATCTTTCAGAGTTGTTGAGCAATTCGACATGCCAGCTCAGGCCCGT GATGTTAGGTACTCAACTAGCCATGGAGTACTTGGTTGTTTAAGTGATAACACATTAAAACTTTTCAAAAGAAAGGAAGA AAGTGAGAGTGCATGACAACTTCCCCGTACCAATTACCAATCTTTCACGAGGAAGGTAATCCTATAATCAGTGCAATCCT TTCGAGAAAATCAGTGAAGCTGCATTTTTTGTAGTTCTAAATTATGTCTTCGAATTTCAGCTGTACTTTGAGATATTTAT TACACTGCTAGGAGCCTACCATTGCTTTGTTTGTTCTCTAATTTTCTAATTTTATGTTATTAGAGCACTAATGTTGATGC CAATATCGGAATTTTGTGACAGTAGTGAGTAATACATGAAAGGCTTAATAGCTTTTTGGTCCCTAACGTTTCACAATTTG GCAAGGTTGGTCCCTCCAGGAATTTATTAGCCTGAAACGTCTCTTACGTTCACTAACCGTTGCAATTTTAGTTTTCCGTC CACTTCCGTTAAATATTTAACGGTTTTTATTAAAAAATTAATAAAAAATAAAACAGCACCTTCAACATATTCATCAATCT TCATCTTCTTCATCATCTTACCCAGGAAGAAGAAAATCCCAAATTCACAAAAGTAAATCTCAGAACAACTTATTCAGCAA AAGCAACAAACTTTATCTGAGAAAGAAGAAAAAAAAATCAGAGAAATTCCCACAACCAATCACCAGTACCCCAACGTTGA AATGGAAGAAGCTCTTCTTTTCTTCCACAACATCACCCTTTCAAAACCCAAGAACAACAAAACCCAGAACCCTTCAAAAC CCAACAACAAAACCCATAAACCACCACCCCCACCGCCATACCCAACCCCACCACCACAGAGAACCTCGTTCGCACACTAA TGGCTTCCAAGCAACCACAACAAAATCAGAGAGGAGGTGATGGTGGCGCGCACGACTTCAGGGACAAAGGTGACAACGGC GCGATCTAGAACTCGTAGGAGTGGTGGGGGCGTGACGGATCTTGGGTGGTTGTGGCTCGGTGACGCGATTTAAGGGAGGA GGAGGAGATGGTGGCTGACGGCTATTGGGTTGAGAGAGGGGAAGAGAAGAGCTAGGGTTTTTTATTTTGGTTAAATGTTG GG

Download Genomic Sequence

CDS sequence (LotjaGi1g1v0687400.2) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGGACACTTCTAATGATGTTCTATTAATAGCACGAAAACCAAAAGCATTCGGTGGAGTACAATTGCTAACCAAAATGAG CTTGATATCTCCATTTGAGATGGAGGATATCTTTTTGTCTTCCACTACATGTGCTATTAGAGACCTGCATATTTCTCCTT CTAACAGTAGACTGGCTCTCTATGCTTCAGAAGGGAAGAAATTATCAGTGCTCAGCTTGGACAGTAGCGACATTGTTGTC AATTATCGTCTACAGAATCCTGCTTGGTCATGCTCATGGGATCTCAACAGTACGAATTATATATATGCGGGACTACAGAA TGGATCTGTGATGGTGTTTGATATGCGCCAAACTTCAGGACCTTTAAAATCTTTAGTTGGGTTGACTAGCTACCCTGTTC ACACTGTACAATCTCTTTCACAAACTTCAAGCCTTCATTCTGATGCTAGAACCGTCCTATCCGCATCTGCCAGTGGCATT TGTCAGTGGAACATTGATTCTGAAGATCGGCCGATTGTGGTTCCTGAAACTGACAATCAAGGAGAGTGTATTTCCCTTGC CTATTGCTCTAGTAGTGATCACATTGTTGGTTCCTACCGTCCAAAGTATGACAAGTCAAAGGACTATCCAATGTTTGATA TGTCGAAGGACCGCCAAATATTTGACATGTCGGAGGGTGTGCCTCTTTCTCCACCATTGCCTACTCCTCAAGTTACTGTA CAACGAGACCGGTGCTCTCATGTCTTGTACAAGGGAATGGGCAGTCATGATTTCCAGAAGATGGGTTACACATATGGCAA TTTATGGAAAGATCGACTGCCAAAATGTGCAGTTATAGACATGAAGAATCAGGGTACATTCTTTGCATCTGGAGATCAAT TTTCAAGGGATTTGCTCTTGTATGAGTTGCCATCTTTCAGAGTTGTTGAGCAATTCGACATGCCAGCTCAGGCCCGTGAT GTTAGGTACTCAACTAGCCATGGAGTACTTGGTTGTTTAAGTGATAACACATTAAAACTTTTCAAAAGAAAGGAAGAAAG TGAGAGTGCATGA

Download CDS Sequence

Protein sequence (LotjaGi1g1v0687400.2) extracted from Lotus japonicus Gifu v1.2 Proteins.

MDTSNDVLLIARKPKAFGGVQLLTKMSLISPFEMEDIFLSSTTCAIRDLHISPSNSRLALYASEGKKLSVLSLDSSDIVV NYRLQNPAWSCSWDLNSTNYIYAGLQNGSVMVFDMRQTSGPLKSLVGLTSYPVHTVQSLSQTSSLHSDARTVLSASASGI CQWNIDSEDRPIVVPETDNQGECISLAYCSSSDHIVGSYRPKYDKSKDYPMFDMSKDRQIFDMSEGVPLSPPLPTPQVTV QRDRCSHVLYKGMGSHDFQKMGYTYGNLWKDRLPKCAVIDMKNQGTFFASGDQFSRDLLLYELPSFRVVEQFDMPAQARD VRYSTSHGVLGCLSDNTLKLFKRKEESESA

Download Protein Sequence

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	PTHR16047 View details on PTHR16047 Search for proteins/transripts with this domain View external data on PTHR16047	1	344	344	9.0E-99	IPR037381 Show description in modal box View details on IPR037381 Search for proteins/transripts with this domain View on EBI InterPro Service
Gene3D	G3DSA:2.130.10.10 View details on G3DSA:2.130.10.10 Search for proteins/transripts with this domain View external data on G3DSA:2.130.10.10	30	218	189	5.8E-13	IPR015943 Show description in modal box View details on IPR015943 Search for proteins/transripts with this domain View on EBI InterPro Service
SUPERFAMILY	SSF50978 View details on SSF50978 Search for proteins/transripts with this domain View external data on SSF50978	42	342	301	2.38E-16	IPR036322 Show description in modal box View details on IPR036322 Search for proteins/transripts with this domain View on EBI InterPro Service

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:0004842 View details of GO:0004842 AmiGO InterPro QuickGO	Molecular function	Ubiquitin-protein transferase activity	Catalysis of the transfer of ubiquitin from one protein to another via the reaction X-Ub + Y --> Y-Ub + X, where both X-Ub and Y-Ub are covalent linkages.	Subterm of View details of GO:0019787
GO:0005515 View details of GO:0005515 AmiGO InterPro QuickGO	Molecular function	Protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).	Subterm of View details of GO:0005488
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:0016567 View details of GO:0016567 AmiGO InterPro QuickGO	Biological process	Protein ubiquitination	The process in which one or more ubiquitin groups are added to a protein.	Subterm of View details of GO:0032446
GO:0036297 View details of GO:0036297 AmiGO InterPro QuickGO	Biological process	Interstrand cross-link repair	Removal of a DNA interstrand crosslink (a covalent attachment of DNA bases on opposite strands of the DNA) and restoration of the DNA. DNA interstrand crosslinks occur when both strands of duplex DNA are covalently tethered together (e.g. by an exogenous or endogenous agent), thus preventing the strand unwinding necessary for essential DNA functions such as transcription and replication.	Subterm of View details of GO:0006281

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Expression data

Expression pattern

Expression pattern of LotjaGi1g1v0687400.2, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi1g1v0687400.2