Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi3g1v0269600
Transcript ID	LotjaGi3g1v0269600.2
Related isoforms 1	LotjaGi3g1v0269600.1
Lotus japonicus genome version	Gifu v1.2
Description	DNA repair RAD51-like protein; TAIR: AT2G28560.2 DNA repair (Rad51) family protein; Swiss-Prot: sp\|Q9SK02\|RA51B_ARATH DNA repair protein RAD51 homolog 2; TrEMBL-Plants: tr\|A0A0S3SGI1\|A0A0S3SGI1_PHAAN Uncharacterized protein; Found in the gene: LotjaGi3g1v0269600
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr3:51955999..51961052) extracted from Lotus japonicus Gifu genome v1.2.

CAACGACGAAAGAAAACTCTGAATCAAGTTTGGGTGTTTTGACGTTCCTTCCTTGATTCATTCCCTCTTCTGTTTCCCGC CAAAACAGAAGAGCAGAGAAAGGAGCGAACGATGGCGAACAAGGTCATCAAGCAGATGGGATTACCCAAATCCATCGCCA ACATCTTCACCGCTCGTAACATCATCACCGCCAAAGTAAACTTTCCCTCTCAATTTGCTTCCCTAATTCAATTTTGTTTC CCCTTTATATTCCATTCTCCGATTTTGCTCAGAAATTTCCTTTTATCTCTTCGAATTATCTGCAATTAGGTCTTCGTTTT TCAGAGAAATGATGCATTTTTTTATTGTTCAAAATCACAGGACGCGTTGTCTCTCACTGATTTTGAGTTGATGGAGTTGT TGGACGTTGGAATGGCAGAAGTAACATCTGCCATGGCACACATTAGTGAAGTTGTGTGTCCACCTTGTCAAACTGTATGT ACATCCTCTTTTATTTTTTTAGATTTGTTATTGTTACCATTATTTCAATTTGTTCAGGAATCAATTACTGAGTATTTGTG ATAATGATACTGTTGTAGGCGTTACTTCTGATGGAGCAGCGAGTACGCAATGAGAGCCTGGCCGGTCATCTTCCCACTCG TTTGAAAGGGTTGGATGAAGCCTTGTGTGGTGGTATACCCTTTGGTGTTTTGACTGAGTTGGTTGGTCCAGCTGGAATTG GCAAAACACAGGTATAATTGGTTTGCATTTAAATTTATACCAGGATGAATGCATTTCAGATTTGGATTATGCTAAGGTTT GAGAGAATATTTTCCACTTTCCAGTGATTGTTAATAAGGATAGGTGAACTTTTTATTGCAGTTTTGCTTGAAGCTCTCAC TGCTGGCTTCAATGCCCGCGAGTTGTGGAGGCTTAGATGGCCGCGTGATATATATTGACGTTGAATCCAAATTCAGTTCG AAAAGGTACTTGAAACACACAGGCATTGTGTTTTTCGATTTCAATAATATGATATTATTCAGTGTTACATGTTTTCATTG TGTTGAACACTAGTGAATTCGCTTCTTTTATTCCTCAGATTGATAGAGATTGGATTGAAGAGTTTTCCTGAAATATTTCA CAAAAAGGGAATGGCACAGGAGGTGTGCTGGTTATCTCTCTCTCTCCCTCGCTCTTATATTTTCTTCTGAGGATTGTCTT AATTGACATATGCAGATGGCTGGTAGAATCCTGATTTTGCGTCCTACATCACTTTCTGAGTTTGCTGAGTGGTGAGAATC TCCGCATGACTTTATTGTAGTTATTCTCAGGTACCCTATTTTAATAATTTAAAACAAGAGAACTCAGTTATGTTGTCTCA AATAGATGCTGCAATAGTTTAAATATTTTTTAGCACTAGAGAATGGTCATAAATTATGAAAGTTATGATTCAGAAGGGCA GAAGAGAAATAATGCAAACAAAATGTGAAAAGTTCAAAGTTTGGCTCTTTGGACTGGACGGGGGGGGGGGGGGGAGAGAA AAAAAGAGGACCGGGTTGTTTTGGTGTTATACTTATACAACATTAAATGGTTACTTTCCCAGTTGAAACAGGTTACTGGT ACACCATACCTACTCTGTCAAGACTGTCTTTCTGTCTCTGATCTGAAGGAAAAACACGTTATCAAAGCTTATCACTAGTT TAGAAATGAACTTGATATGCAATTGGGTTTCTATTAGTCTTAGAGTCTCTTTCTGATTCATGACTCTCTTAACCATTCTA GTAACTTACGTTGTTGAACTTGCTACTTGTCATAGCTTTTATTTTATTCTGCCCTTCCTAAGTTTCTATAAGACAAGTGA CACTGTTAATGTACTAAATGATGTGTTAACATTACCAGTTTGAAGCAGATCAAAGTATCCCTCCTCCAGCAACACGTAAA GTTGCTCATCATTGACAGCATGGCTGCACTGGTTTTAGGGTGAGCTTAACATTGGGGCAATGCTTGTGAATAGTATATTA AAGGATACTTTCTTAAAATGCGCATCAAAATTTTAATCATTCTTACAATGTCCTCCGATGCATATCTCATACATACAGTT TGTTCAATTTTTCTGTTCAGTGAACATGATTGTGGGGCTTCAAGACATCAAGCATTGGGTTGGCATGTTTCTTTTATCAA GTATGACTATACCATCTTTACTGTTACGAGTGAGATTTTTGCAAAGGACAACTGCTTGCTTCTTCCTCGAGGTGGTACTG ATTATAAACATGTCTAGGTCACTTGCTGAATTTTCACGAATTCCAATTGTATTGACAAATCAAGTAAGATCTCAAACTGG TGATGAATCTCGCATGTATTCGTTTCAAGGTATGATGAATAAATTATATTTGGATAGAGCTTTAGACTGTGTAGTTTAAC TTGTCATTGGGCGTTTTTACTTGTTAAGCAGCACAGAGCCACTCTATTAAAAAAGACAATCCTGCTACATATGATTCTCA TCTTGTTGCTGCCTTGGGCATTAATTGGGCTCATGCTGTGACCATCCGTCTTATACTTGAATCCAAATCAGGTTGGTTAA TTTTCAGTGATTTGTTGTGTTTTTCTGTAACAAATGATCACGTGTATGCCACTGCCACCTGGATTTAACTCAAATTGTTG AACTGGGTTGAGGTCGTTATTTAAACTTATGGTAATGACTCATTACTTAATTTCAAGTTAGATTGTATTTGGAGTTGTCC ACATATGGAGAGAGAGGGGGCGGGGAGAGAAGTCAGAAATTTATATAAATTGTTAATAGTCAGATGTCCCATTTATAAAG TAAGTATTTTATATGAATGAGTTTTGTTACATGGATCTGTTGTTCATTCTGACAATTTTTGGTTAAAATTTGGTAAGTGA TTTGAGATTGAAAATTTAGCAATTAAGATAAAAAGGGGAGAAAGAGAGATAGGGATGGAACACAAGATATTATGATTTGC TAAAAAGTCTGGATAATTGTGATACAAAACGCTGACCTTATACCCAGATTTATATTAACAGTATGAGTGTGTTTAGATTT GCTTTTTTATTTTTGTCTTGAAAATACTTTACAATTTATATCTTACTAGAAGAGTTTTTGAAATGAAAAGAGCAATTTCC CCTCGAAACCAATCATAACCAATACATGCTAGGTGTCTAGGTCAAGTACTAGTGTAGTACAATTAGTAAAAGGCCAACAT AAAAACACTCCGGCCTAACTAACACAATGTAAGTTTATAAGTTAGCTCAATAGTATTCTGACAAGTTCTAATGTGTCAAC CAACTGACCAAGTATTTATTGTAGATTGTAATACATGATTTTGTTTGTTTACAAATTTGAATTTGAGTTGTTCAATTTCT TGCAGGTCAACGATTTATCAAGTTAGCAAAATCTCCCATATCACCTCCCCTGGCTTTCCCTTTTAGCATAACTTCGTCAG GGGTGGTTCTGTTGGATGATGATGGGATGGAGATAAGAGGGCCAGAAATAAATACTATTCACTGTCAAGGTTTGTCTTTT AGCTTTTTTCCGGTTAGGCCTTCTGAGTACATTTTAAGTGAGCAAGTAAAATACTTGGAAAGTTAAAACCATATCCCATA AATGACGTCCACAACTTGTACTATATTTTATATAGGCATGATTTCCCTAAAAATAAGCTCTTACTTAGGACATTAGGTTG AAATTTTGTGTTAAATGTGCCAATGCTAGAATCTTGAGTTGCAACTCTTAGAGGGTTTCCTTAGTTTCTAATGTACTAAT GCTAGAATCTTGAGTTCTTGAGTGACCTATTTCATATTTCATGAAAAATATGCAGGTCAAAATGCTCTGTTTAATTTTGA AGGGGTAAGGCACCAATGATCAGTCCATAATATGTGCCTGCCAATTATATGGTGTGTCATGACAGTATCCATTTATGTCC CACTCATATCTATTAGCAGTTCAACAATCCATCTGCTTTCAGAAATTCTGAGGTTAGTTCAGTTAATGTCCTTGGAATGT ATATCTTATTGTTCTAAGCTTTCATACTTGCCCCGGAGCTTCTGAATGTATTTTTCCAGCCATATAGCCTAAAATAGGTA ATTGTGTTAATTATTTACTGCGTAAATTTTTCCATATTAATTCTCTTTACCTTTATCATGAGATTATTGATGGCAATTGA ATCTGAAGTATTTCGTGTCTTTAGGCTACAAATATCAAATATGTGAACACGAATTCTAATTTAATTTTATGAGATGATTT AGATCCTTACATTTAGTTGTGGACAGTTGCACGTTTCCCCCTCTGCCATTGTTTGTCACCACTCACGATTATGTTTCTTG TCTTTGTAAAAATAAGTGAACTATAATATCATAGCATGGAGCTCAGCTTGTTTGATTATTTTGATCGAATGTATTAGCTT CATGACTTCAGATCTCAACTTTGAGTCGGTGACCATGTGGTTCCAAAATTTGTTGAACTTATAATGCTTCACTTCCAGCA CCTTGCAAGTATCCATTAGTCATCATCTCATCAAGCAAATCTTGCACTAGGACTCATGCTGACTCAAAGATGATTTATTT CGTATTTGCTTCTGTCTTTCGAAGACTTTTATATGCTCATATTTTGTTCTTCGGAATAAGCTGTTTAATTATGTTCCTAG AATTTATGTTCCTATATGTTAGGAACGATGGTCAGGTATCAAGGCCACAAGAGAGATTGGCTCATCATGAGGATGTGGGC CCTAAAGTATGGAGGGTATATTCTAGGAGGGGCAAGAAAGGGAATAGTGGCTAACCGTCTAACAGAATAGAGAGAGATTG AGTGATTGTAATATCTCCAGTATATAAGGAGAGTAAGAGAGGTAGAGTGGGTATCCAGAGAATTGCTAGCTGTTAGTATG GATAGGAAGCATTAGCAATGCTTCCTATAGGAGCATTGCTCTGGGCAGAGTATTTGGGAGCACATTCCTTCTCTGTAATT TCTTTCCACAATCAATAAACAATAACTTTCCTGCATTTTCTCATTCATTTGTGGTGTGTGTGAGTGGGTTCCTAACACTA TACTTGCCTATAAC

Download Genomic Sequence

CDS sequence (LotjaGi3g1v0269600.2) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGGCGAACAAGGTCATCAAGCAGATGGGATTACCCAAATCCATCGCCAACATCTTCACCGCTCGTAACATCATCACCGC CAAAGACGCGTTGTCTCTCACTGATTTTGAGTTGATGGAGTTGTTGGACGTTGGAATGGCAGAAGTAACATCTGCCATGG CACACATTAGTGAAGTTGTGTGTCCACCTTGTCAAACTGCGTTACTTCTGATGGAGCAGCGAGTACGCAATGAGAGCCTG GCCGGTCATCTTCCCACTCGTTTGAAAGGGTTGGATGAAGCCTTGTGTGGTGGTATACCCTTTGGTGTTTTGACTGAGTT GGTTGGTCCAGCTGGAATTGGCAAAACACAGTTTTGCTTGAAGCTCTCACTGCTGGCTTCAATGCCCGCGAGTTGTGGAG GCTTAGATGGCCGCGTGATATATATTGACGTTGAATCCAAATTCAGTTCGAAAAGATTGATAGAGATTGGATTGAAGAGT TTTCCTGAAATATTTCACAAAAAGGGAATGGCACAGGAGATGGCTGGTAGAATCCTGATTTTGCGTCCTACATCACTTTC TGAGTTTGCTGAGTGTTTGAAGCAGATCAAAGTATCCCTCCTCCAGCAACACGTAAAGTTGCTCATCATTGACAGCATGG CTGCACTGGTTTTAGGTGAACATGATTGTGGGGCTTCAAGACATCAAGCATTGGGTTGGCATGTTTCTTTTATCAAGTCA CTTGCTGAATTTTCACGAATTCCAATTGTATTGACAAATCAAGTAAGATCTCAAACTGGTGATGAATCTCGCATGTATTC GTTTCAAGCACAGAGCCACTCTATTAAAAAAGACAATCCTGCTACATATGATTCTCATCTTGTTGCTGCCTTGGGCATTA ATTGGGCTCATGCTGTGACCATCCGTCTTATACTTGAATCCAAATCAGGTCAACGATTTATCAAGTTAGCAAAATCTCCC ATATCACCTCCCCTGGCTTTCCCTTTTAGCATAACTTCGTCAGGGGTGGTTCTGTTGGATGATGATGGGATGGAGATAAG AGGGCCAGAAATAAATACTATTCACTGTCAAGGTCAAAATGCTCTGTTTAATTTTGAAGGGGTAAGGCACCAATGA

Download CDS Sequence

Protein sequence (LotjaGi3g1v0269600.2) extracted from Lotus japonicus Gifu v1.2 Proteins.

MANKVIKQMGLPKSIANIFTARNIITAKDALSLTDFELMELLDVGMAEVTSAMAHISEVVCPPCQTALLLMEQRVRNESL AGHLPTRLKGLDEALCGGIPFGVLTELVGPAGIGKTQFCLKLSLLASMPASCGGLDGRVIYIDVESKFSSKRLIEIGLKS FPEIFHKKGMAQEMAGRILILRPTSLSEFAECLKQIKVSLLQQHVKLLIIDSMAALVLGEHDCGASRHQALGWHVSFIKS LAEFSRIPIVLTNQVRSQTGDESRMYSFQAQSHSIKKDNPATYDSHLVAALGINWAHAVTIRLILESKSGQRFIKLAKSP ISPPLAFPFSITSSGVVLLDDDGMEIRGPEINTIHCQGQNALFNFEGVRHQ

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
PIRSF	PIRSF005856 View details on PIRSF005856 Search for proteins/transripts with this domain View external data on PIRSF005856	1	342	342	6.1E-57	IPR016467 Show description in modal box View details on IPR016467 Search for proteins/transripts with this domain View on EBI InterPro Service
PANTHER	PTHR46456 View details on PTHR46456 Search for proteins/transripts with this domain View external data on PTHR46456	1	360	360	6.4E-181	IPR030548 Show description in modal box View details on IPR030548 Search for proteins/transripts with this domain View on EBI InterPro Service
Gene3D	G3DSA:3.40.50.300 View details on G3DSA:3.40.50.300 Search for proteins/transripts with this domain View external data on G3DSA:3.40.50.300	65	342	278	3.3E-59	–
ProSiteProfiles	PS50162 View details on PS50162 Search for proteins/transripts with this domain View external data on PS50162	80	255	176	39.671	IPR020588 Show description in modal box View details on IPR020588 Search for proteins/transripts with this domain View on EBI InterPro Service
Pfam	PF08423 View details on PF08423 Search for proteins/transripts with this domain View external data on PF08423	83	337	255	4.3E-39	IPR013632 Show description in modal box View details on IPR013632 Search for proteins/transripts with this domain View on EBI InterPro Service
SUPERFAMILY	SSF52540 View details on SSF52540 Search for proteins/transripts with this domain View external data on SSF52540	83	338	256	9.32E-36	IPR027417 Show description in modal box View details on IPR027417 Search for proteins/transripts with this domain View on EBI InterPro Service
SMART	SM00382 View details on SM00382 Search for proteins/transripts with this domain View external data on SM00382	101	278	178	0.0027	IPR003593 Show description in modal box View details on IPR003593 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:0000724 View details of GO:0000724 AmiGO InterPro QuickGO	Biological process	Double-strand break repair via homologous recombination	The error-free repair of a double-strand break in DNA in which the broken DNA molecule is repaired using homologous sequences. A strand in the broken DNA searches for a homologous region in an intact chromosome to serve as the template for DNA synthesis. The restoration of two intact DNA molecules results in the exchange, reciprocal or nonreciprocal, of genetic material between the intact DNA molecule and the broken DNA molecule.	Subterm of View details of GO:0000725 View details of GO:0006302
GO:0003677 View details of GO:0003677 AmiGO InterPro QuickGO	Molecular function	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).	Subterm of View details of GO:0003676
GO:0005524 View details of GO:0005524 AmiGO InterPro QuickGO	Molecular function	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.	Subterm of View details of GO:0008144 View details of GO:0032559 View details of GO:0035639
GO:0006281 View details of GO:0006281 AmiGO InterPro QuickGO	Biological process	DNA repair	The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.	Subterm of View details of GO:0006259 View details of GO:0006974
GO:0008094 View details of GO:0008094 AmiGO InterPro QuickGO	Molecular function	DNA-dependent ATPase activity	Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction requires the presence of single- or double-stranded DNA, and it drives another reaction.	Subterm of View details of GO:0042623
GO:0033063 View details of GO:0033063 AmiGO InterPro QuickGO	Cellular component	Rad51B-Rad51C-Rad51D-XRCC2 complex	A DNA recombinase mediator complex that contains the Rad51 paralogs RAD51B, RAD51C, RAD51D, and XRCC2, or orthologs thereof.	Subterm of View details of GO:0033061 View details of GO:0044428

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Expression data

Expression pattern

Expression pattern of LotjaGi3g1v0269600.2, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi3g1v0269600.2