Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi1g1v0725800
Transcript ID	LotjaGi1g1v0725800.1
Lotus japonicus genome version	Gifu v1.2
Description	Non-structural maintenance of chromosome element 4; TAIR: AT1G51130.1 Nse4, component of Smc5/6 DNA repair complex; Swiss-Prot: sp\|Q9C689\|NSE4A_ARATH Non-structural maintenance of chromosomes element 4 homolog A; TrEMBL-Plants: tr\|A0A151TU71\|A0A151TU71_CAJCA Non-structural maintenance of chromosome element 4; Found in the gene: LotjaGi1g1v0725800
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr1:129704083..129707970) extracted from Lotus japonicus Gifu genome v1.2.

GAAGAGAAACGTATTTTAGAAATCCGAAAATATGTAGAACGGCAAAGGCCACACTCACTGACTATGGAAACGTGCCTCGT AAGCCTCTTTGAATCACAGTCCCTTCCCTCGCGCCTCTTCATGCCTTCGATTCGTCTTCTTCTACACTCTCTCTTCCCTC CCTTCCATATAACAACGCATTCTCTGTTCTTTCCACTTTTCAAACTTAACTACTGCTTTTCAAAATCGCTCTAGTAGTAG TAGTGTCATCATGGTCAAACGCAAAATCCACCACGACGGTAGCACCACCACCACCGAGAATGCCGATTCTGACGACGCCG CTGATTATCATCAAACTCGTCACGCCCGTCGTGGTCTTCGTTCTAGCTACCTCGCCATCAAGAACAGGATTCACGGTAAT TCACTTTTCTTACTCGCCACGCCTTTCTCCTGTTTGATTTTTTGCCTCCTTCACCTCAATTTTTGTACTTCTTCTCCTTT TCGCTAATTTTGTTATGCATTTTCTATGTGAGAAATTGAACTTGTTTCGTTTAGGAACTAATTAAGTGTCTGTTTGATAC TAATTGATTGCAATATGCAAAATCATAACCAAACACACTTTACTCATGTACTACTTTGTGGTTTTTGCAGATGAAAAGGA TGAAATTGCAAGCCCTGAGTCTAAGAAATTTGATTTGATCTTTGGTGAAATGGAAAGCTTACACCAACTAGGTATTTATT TAATATTTATTGTCTTGTATTTAAATATTGTTACGTGGGAAGAAGATATTATTAAAGATGATCGTATTATCAATAAGTAT TTAAATATTGTTACGTGGGAAGAAGATATTGTTAAAGATGATCGTATTATCAATAATATGTCTCATAACAAGAGAGTAGA TTAAATAAGAGGATCTAATTCATCTGTTATTCTGGCTGAAAGATTTTTAAAATCAGAATAGCTTTTGATTAAGCTCAATG GCTTTTATGGTTGTTGTTGTATTTAAATATTGTTGTATTTGCTTGCAGATTTGTTTTGTCTATTATAGTAAGTTACATTT AAGGATATAAGTTTTTCTATTTTTGTAAAATTTTGGTTGAATATTCTGTCTAATTTTAGTTACAAAACCAAGAGAACAAG TTGCTGATGCACAGGCTCTATTGGACATCACCAAATCCTTGGTGGTGACTGCGAGAGCTCATGGTGGCGGTGGACTCACT CCTTCTAGCTTTGTCGCCCACATGCTTAAGGAATTTGGAGGAAAAGGTGGAGGAGCAACTACTAGCACTGAAGATTGTAG CAGAAACTTAATAGCTTGGAAGGATATTGGAGTTGCAGTTTCATATGTTTTTGGAGGGGGTTATGGCTGTTCTACAATGT AATGTACTAATGTCCATGCTTTATGATAGAAGACTTATTTGTTTTGTAATTTGATATGATTTTTCCCATTGGATATATGT AATTTGCAGTTTTGCTTCTTCAGGATTGGCCCAATCGATGCTAAAATAAAGCAGAGGAAGGTCATTAAACGTAGAAAGCA AGTGAAATCCATTGAATTGGCTCGGCCAGAAGAGGTTAATTTTCTTATTGTGTCTGCAGTTTTTGGTAGTTATAAAAACA AGAAGGAATGTAAAAAGGAAAATAATGGGGGTGTTTTTATGAGGTTTTGATTTCGATAGACTTTTAATCATGCATCTTAG GTTGTTACCAATTTCCAATTTTTGATAATATTAGTGTCTACACAGTTTCTGTTAATTTATCACCAATTTGTTTGAAGTTA GAACTCAGAGCACATTATGTAGACGTTATTGCTTTGATGTTTGATCCTAATTCCAGCATGGAACTAGAACAGCTAAGAAT TCTCTGTTTACTACTCCAGAGTGGAGTATTTAGAATGTAAGCAGAAATATTTTTATGTAATCGATGTACTAATATTGTTT ATTCTAAACATTAGCTTGTCTTTTTGCAGCTTGGCGGAGGTATAAGCGAAGAGAAAACTGATACTGATAAAAATATGTTA ACTATGTTTAACATCTTAAAGAAAAATAGAGTTGTCAGGCTTGAAAATCTGGTTTTGAATAGAAACTCCTTTGCACAAAC AGTGGAGAATTTATTTGCTTTATCTTTTTTAGTCAAAGATGGGCGAGCTGAAATAAGAGTGAATGAGGCTGGACAGCAAT TAGTTTGTGAGTCACTTTGAAAATGCTTAATTGCTTATACTAACCCCTCTCTCTTTAAATTTGTTATACTCTTATATATC CTTGGTTTTTAACTTTTCTTCGTCCACTCCCTTCGTCAGTGCCAAGGAATGCTCCTGCTGCAAATGCAGTTCTTACTAAG GACGTTGCTTTCAGCCACTTTGTATTCCGATTTGACTTCAATGATTGGAAGGTATCTGGAAAGAATTGTTAACTTTTTTT GGCAATTCTGATATGTCTATTTAACTTTGTTATACTTCAAGTTTTCAACTAATTTTTGGTATATTTTAACTCTTTCCTCT TGTAACTTCTCCTAAATGAACTAGTGTGAATTGAAACTGCAAGCTTTACCTTTTGTCCTTCAATGTGTTTTTCTTTTTCA CTATTCATATCCTTCTATTTAATTCTCAGTTGATGGTTAGCACTGTTGGGGTCGGGGAGGAGTTGATGCCAGATAGAAAT AGTCAATGACTCAATCACAGAGTTAGTGATCTGCAGAATTTCATGGCCTACAACACAAGTAACTGACTTATACAGGAAAC ATGATTTGGTTCTACAGCAGCAGTGGTCAAGAGAAGTTGTCACTTGAAAGCGATCTGTTAATGAAGAGCTAAGTAGAGTT ATCATTATGAACAGAGAAACCATGTACAGGTATTTGGCATGTGTACAAATTTGGTTTTGCTCATTGCATAAACATGCCTA GAGTACATACAAGCTAAGTATAGTTTCAGGTTAAATATATGTTCAACTCTTTTGTTACTACTTTCAAAGAACAGATAATG GCTTTAGTGCATATGGTTATTCAACTTGGTTCTTTTGGATTTTGTAAGAACACATGTCTGGAATTGAATGTGGCACCTAA CCACCTGATCAACCGTGATGATGCGACAGGATTTTGCATGGTGTGAATTTGTAACAAAGCCATTAATTAAAGCAGGGGAA TTAGGGTTTTGGATTCGGTTTGACTAGTGTTCTTGGTGTTAGGAAGGAAAAAGGAAAGGAAGGTACGGTTTGGGAGGGAG AAAATCTAATTTTGTATGTTAAATAAGTTTTTGGTTGCTCTAAGCACAAGGCATCTTAACTCCACTGAATGTAAATTCAA AAAAAAAAAAAAACTCCACTGAATGTGTCACGGTCAACTATGATATGGGCATACACAAGCTTTTGACTTGACACGTAATC AAGTCGCGTGAACTTCAAATATGCATATACTTTAGTGATGCATATACATTTCATTCACAGTCAAATATGCATATACTTTA GTGACAGTTTTTAACAGCTACAAATGTTAACGGTAGTTAAAAACTGCCATAAAAATTATTTGTCAACGGATGGTCGTTGA AATGCGTATGTTCACACATTAAATGAAAAACCTTTGATTTAGGAGCAAAATTGATTGCGCAATTAAGCGGGAAGGAAGGA CGGTTGTGATTCAATTTGAGGTTTTTTTTATGACTTAATTATTATATACGTCTTTATGGAAATACCCTAACACATTCTAA GGTAATGATATCTACATTTATTGAAAGATTGAATTTCCTTCATGAAATAGACTCAATCCAATCACTAAATTTTGTAACAG ATTATGGAAGTTAATAAATATATGAAAGGAAACATTCAATAGATAACAGATAATGTCTTGCCTTTCTTGCGTTGAAGCTT TTGTAACGTTTAGAATCTTCTCATATAAAAATGAAAAAGATTTTTCTT

Download Genomic Sequence

CDS sequence (LotjaGi1g1v0725800.1) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGGTCAAACGCAAAATCCACCACGACGGTAGCACCACCACCACCGAGAATGCCGATTCTGACGACGCCGCTGATTATCA TCAAACTCGTCACGCCCGTCGTGGTCTTCGTTCTAGCTACCTCGCCATCAAGAACAGGATTCACGATGAAAAGGATGAAA TTGCAAGCCCTGAGTCTAAGAAATTTGATTTGATCTTTGGTGAAATGGAAAGCTTACACCAACTAGTTACAAAACCAAGA GAACAAGTTGCTGATGCACAGGCTCTATTGGACATCACCAAATCCTTGGTGGTGACTGCGAGAGCTCATGGTGGCGGTGG ACTCACTCCTTCTAGCTTTGTCGCCCACATGCTTAAGGAATTTGGAGGAAAAGGTGGAGGAGCAACTACTAGCACTGAAG ATTGTAGCAGAAACTTAATAGCTTGGAAGGATATTGGAGTTGCAGTTTCATATGTTTTTGGAGGGGGTTATGGCTGTTCT ACAATGATTGGCCCAATCGATGCTAAAATAAAGCAGAGGAAGGTCATTAAACGTAGAAAGCAAGTGAAATCCATTGAATT GGCTCGGCCAGAAGAGCTTGGCGGAGGTATAAGCGAAGAGAAAACTGATACTGATAAAAATATGTTAACTATGTTTAACA TCTTAAAGAAAAATAGAGTTGTCAGGCTTGAAAATCTGGTTTTGAATAGAAACTCCTTTGCACAAACAGTGGAGAATTTA TTTGCTTTATCTTTTTTAGTCAAAGATGGGCGAGCTGAAATAAGAGTGAATGAGGCTGGACAGCAATTAGTTTTGCCAAG GAATGCTCCTGCTGCAAATGCAGTTCTTACTAAGGACGTTGCTTTCAGCCACTTTGTATTCCGATTTGACTTCAATGATT GGAAGTTGATGGTTAGCACTGTTGGGGTCGGGGAGGAGTTGATGCCAGATAGAAATAGTCAATGA

Download CDS Sequence

Protein sequence (LotjaGi1g1v0725800.1) extracted from Lotus japonicus Gifu v1.2 Proteins.

MVKRKIHHDGSTTTTENADSDDAADYHQTRHARRGLRSSYLAIKNRIHDEKDEIASPESKKFDLIFGEMESLHQLVTKPR EQVADAQALLDITKSLVVTARAHGGGGLTPSSFVAHMLKEFGGKGGGATTSTEDCSRNLIAWKDIGVAVSYVFGGGYGCS TMIGPIDAKIKQRKVIKRRKQVKSIELARPEELGGGISEEKTDTDKNMLTMFNILKKNRVVRLENLVLNRNSFAQTVENL FALSFLVKDGRAEIRVNEAGQQLVLPRNAPAANAVLTKDVAFSHFVFRFDFNDWKLMVSTVGVGEELMPDRNSQ

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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
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	1	31	31	-	–
PANTHER	PTHR16140:SF13 View details on PTHR16140:SF13 Search for proteins/transripts with this domain View external data on PTHR16140:SF13	16	313	298	1.1E-120	–
PANTHER	PTHR16140 View details on PTHR16140 Search for proteins/transripts with this domain View external data on PTHR16140	16	313	298	1.1E-120	IPR027786 Show description in modal box View details on IPR027786 Search for proteins/transripts with this domain View on EBI InterPro Service
Pfam	PF08743 View details on PF08743 Search for proteins/transripts with this domain View external data on PF08743	221	309	89	1.0E-23	IPR014854 Show description in modal box View details on IPR014854 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: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: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:0030915 View details of GO:0030915 AmiGO InterPro QuickGO	Cellular component	Smc5-Smc6 complex	A conserved complex that contains a heterodimer of SMC proteins (Smc5p and Smc6p, or homologs thereof) and several other proteins, and is involved in DNA repair and maintaining cell cycle arrest following DNA damage. In S. cerevisiae, this is an octameric complex called Mms21-Smc5-Smc6 complex, with at least five of its subunits conserved in fission yeast and humans.	Subterm of View details of GO:0044427 View details of GO:0106068 Part of View details of GO:0000793

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Expression data

Expression pattern

Expression pattern of LotjaGi1g1v0725800.1, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi1g1v0725800.1