Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi1g1v0174700
Transcript ID	LotjaGi1g1v0174700.2
Related isoforms 1	LotjaGi1g1v0174700.1
Lotus japonicus genome version	Gifu v1.2
Description	Ribosomal RNA small subunit methyltransferase E; TAIR: AT1G50000.1 methyltransferase; Swiss-Prot: sp\|O66552\|RSME_AQUAE Ribosomal RNA small subunit methyltransferase E; TrEMBL-Plants: tr\|A0A072VQR6\|A0A072VQR6_MEDTR Ribosomal RNA small subunit methyltransferase E; Found in the gene: LotjaGi1g1v0174700
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr1:33491799..33495554) extracted from Lotus japonicus Gifu genome v1.2.

GCAAGGTGTCTCATCTCTTATGAATATCCATCCTAGGACTATAACGAGTTAAGTTTTAGTTACTCTGCAACTAGAAGCGT CACAAAATTGAAATTGAAATTGGTGCCAAACTGCAGATGTTGCAAACCCTAGTTCCAGTAACCTTCCGCTTCGTGAATCG CTCATGGCTCCCAAGCTTGTGTGTCCGAGCATTCTCTTCCTCCTCCGAATATGGAGACCAATCACGCGGTGGCCTCCCTC GTTTCTTCTCAGAAACTCTTCCTCCTTCCAAGGCATTCTCTTCTTCCCACTCTCTCTGATTTTCGTAACTGTTTCAATAG TGCCTCAAATCTTGTTGTATCGACATATCTAAGCAATTTGACTGATGGGTATTGCTTTATAGAGCTGGGGTTTTAGGAAA GTTCGTAAAGTCAGCATTTTTAGGATTTGTTCAGAATTTACTTCACTTTTTTTTGAAAAACTATTGCTGTTTAATCTGCC ATATTTGTTTGTGTTTTTTTCTGTAACAATTCAGGGGAATGTTGTTCGTGTACAAGGTGATGAGTTCTGGCATATGACAA AGGTATTGAGGTTGAGCAATGATGATAGGTAATCCTCATTTATCAATGCACATCAATTCGAGACGAAAGTTCGATTGGCG AACCTTTAAATTTGACAATTCATTTTTCTAATTGAATATGCATATAAAATAACATTCATGGAATCACAGTAGAATTGAAT GTATAAGGTCTTGTCCTTGCAAATGTTGTGTCTGTCTGTTACTAATTTATCTATACTGAAATGGGAAGGTGAGAGGAGTA TTCTTCAGGCCTTTTGGCAGTCGAGTTTCAATGGTTTCTGCAAAGTATTTTGTTCGGCCTGGGTTGTTTCGAAGTCAAAT TTTCTGTTTCGAAATCAGTGAAAGGAAATGAAGAGATACTTCTTGCACATATTTTCTAGCCTGGTTTCAGTATTATTTTT ATGATCCAAATCATGATATTCAAGGGTGCAGCTCTTCAATGGGAAAGGAGGTCTTGTAGAAGGATGCATACGGAACATGG ACCGCACCGGAATTGATTTTGTTGCATTGACTGATATGGAGATTATACCTCCACCGAACACGCAATTGCATGTATTTTCT GGTTTTGGTAAGTTCTCGTTGTATTCTGTTGAACTACAACTACTTAGTAACTTTTGCTTATTTTCAACACTTGAGTTTTT CCACCCAATTTTTCACTTATTAAGAACTATGCCTGTCTAGGTACTCTCAAGGGTGGCCGTGCTGACTGGCTTGTAGAGAA ATGTACAGTATGTTTCAGGCATATTGAGATTTTATCTTGTTAGAATTACTGCTTTTATTTTTTATGGTTGTTTCTCTATT ATTCATGTTTAGCTGCCATAGGAACTTGGAGCCAGTAGTGTAACTCCTCTATTGACTGAACGTTCTTCATCAATCTCAGA AAATCGGGTTGACAGATTGGAACGTGTCATATTAGCAGCATCCAAACAATGTAACTACATTTTTACTTGTATGAGGTTAA ACGTTTATTTTACTCCCATTAGAATTTTCTTTGGGCTATGCAGACTTGTAAGTTTTGAAGTTGGGTCTCAAATAAAGGAT GACCTATTTTGCTTTTGGTCAGTGATCCTTACATTGTTGCCTCTTTTTTAGGTCAACGACTGCATGAAATGATTTTTAAA CCTCCTGTGGACATTGATGACCTTTCGCATCTTGTAAGTTCTTCATTTCTAAGTTCTAATCACACAGATCAGCAAATGAC TCAGGCCAGCAATTTTGTCATGAATTTCAGTTATTTTAGAATATTTTTATCCTCTGCATTGTGATAATGTCCATCTTATT AACCAATGAAATGTTTGTTTAGACTGTTAATACTGTATATATGTTTCCTTTTTCTCTATGGAATTCTGAGTTCATCTAGC GATTTGATCCCAGTTTTTGTTAGCAATTTAATATATGTGGCTAGATAATGTCATCTATGACCTAATTCTCATAGCATTCC AACTCTTCTCTTCTCTATGTTTGTAACCTATTTGCCTTTCCTTATGTCCCTTAGATTGCACAGTCAAAGTTGCCACTTAT TGCAACCGCAAAGGCAACTCCAGTTCTTAATGCATTGACATCATTGGAAAAGCAAGCTAGTGGCTTAATCATAATTGGAC CAGAAGGAGGTCAGTATGCTGAATGTAGTCTAATTTCCTTTTTTCGTTTCACCACATGTCAGGACATGGATGAGCATTTC AATTGATAAGATTATAAGTTGAGTTTAGCTGAGGTAAAGTATCCCTTTGTTTATCTTGCTATGTGTTCTCCAGACTTCAC TGAGAAAGAAGTAAGCATGATGGTGGAAGCAGGTGCTAAAGCTGTTAGCCTAGGGCCTCATCGTCTTCGGGTCGAAACTG CCACGATAGGACTTCTAGCTGCTGTCATGTTATGGTCTGACTCTCAGTAAACTTCGGTCTCTTTACTAATCAGTATATGC AGGTCCGTTACTTGACTGTTAGATAAAAAGAAGTTATTGTAAGTTCACATTGGAGATGAAGATGACAGGCTCCTGTTTTT GGGTCCAAGGATGATATTCTCTGTTTTAGTTGGGGAAACAGAGAGGAACATTTAAGGTAGTTTAGGTTTTTGCCTTCTTT AACTGAGAGGATTCACTGTGTCTGCTATTAAACTGTGGGAATAAGAATTGGTACCCCCTTATTTTCCAAAAAACCCAAAA ATGCCCCAATGTTTTAACACCCCCTTTTCTCCCTTTCCCGAGCCTTCACATTCTCTGAACTTTCTCCCGAGCTTTAGGGC TCGGGACTGAAAGTTATTTCCCGAGCTTTAGGGCTCGGGACTGAAAGTTGTTTCCTTACGTTTTCCTTGCCGAGGTCTAA GGTTCGGGAATTGTTCCAATTTCTTCAAAGAAGCTTACCAAGGTTTGGCAACCTCGGGAACAAATTTTTCACATTCCGAG CTTGACAAACCTCGGGAAATCCACGTTTATAAATTACCGAGGCATAGCCCTCGGAATTATTCCGGGAATTAGACCCTCGG GATGTTCCCGAGGAACAAAGCTCGGGAATTTTCATTAGGAAATTTATAAAATATCCCGAGACTTAAGGCGGACGTAGCTC CATGAGAATTGATTTAAAGATGGACAGACTGATTCGAAATTAACAACAATGGTAGCTCTAACTTCATGATTCCCACAAAG AATGCTCATATGTGTAATAACAAGTTATTCGTTAATTCTGCCAACATTTTTTAATCATCCATTCTTATGGTGTGGAGTGT TATACAACATTTTTTAGAGTATAAACTTAAGACCTTTATAGTTTCTATATCCCTTATGGGTAGTATTTGAAGTGCAACAT ATATGATACGTTTTCTGCAAGTGTACGAAACAATTGAAGTAATGAAAAGAGTTTCATATCCACAGAGATTGTGGTTTCTA TCAATTCACACATATGGTATGTTTGGTTTGAGGGACGGGAACAAATTGACCAAGGAAAGAAAACACAAATATCAAAATCC CTTCCAGCGTTTGGATCCTTCATGAACAGTGGAAGAAAGGGAAAAAAAAACACGTAGGTCCCACGTCAATGAACATTCCG CTCAAAATGGGAAGAAAACTGATGAAATGCCATTTTGTTCAAAATACCTGTATTACCCTTGCAACTGACTATATATATAT ATATTCGGAAATCGTTCATAATACCCATTCCTCTTCTTGTTTATAACTACTTTTCTCATCATCATTTTGTTTATTT

Download Genomic Sequence

CDS sequence (LotjaGi1g1v0174700.2) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGACAAAGGTATTGAGGTTGAGCAATGATGATAGGGTGCAGCTCTTCAATGGGAAAGGAGGTCTTGTAGAAGGATGCAT ACGGAACATGGACCGCACCGGAATTGATTTTGTTGCATTGACTGATATGGAGATTATACCTCCACCGAACACGCAATTGC ATGTATTTTCTGGTTTTGGTACTCTCAAGGGTGGCCGTGCTGACTGGCTTGTAGAGAAATGTACAGAACTTGGAGCCAGT AGTGTAACTCCTCTATTGACTGAACGTTCTTCATCAATCTCAGAAAATCGGGTTGACAGATTGGAACGTGTCATATTAGC AGCATCCAAACAATGTCAACGACTGCATGAAATGATTTTTAAACCTCCTGTGGACATTGATGACCTTTCGCATCTTATTG CACAGTCAAAGTTGCCACTTATTGCAACCGCAAAGGCAACTCCAGTTCTTAATGCATTGACATCATTGGAAAAGCAAGCT AGTGGCTTAATCATAATTGGACCAGAAGGAGACTTCACTGAGAAAGAAGTAAGCATGATGGTGGAAGCAGGTGCTAAAGC TGTTAGCCTAGGGCCTCATCGTCTTCGGGTCGAAACTGCCACGATAGGACTTCTAGCTGCTGTCATGTTATGGTCTGACT CTCAGTAA

Download CDS Sequence

Protein sequence (LotjaGi1g1v0174700.2) extracted from Lotus japonicus Gifu v1.2 Proteins.

MTKVLRLSNDDRVQLFNGKGGLVEGCIRNMDRTGIDFVALTDMEIIPPPNTQLHVFSGFGTLKGGRADWLVEKCTELGAS SVTPLLTERSSSISENRVDRLERVILAASKQCQRLHEMIFKPPVDIDDLSHLIAQSKLPLIATAKATPVLNALTSLEKQA SGLIIIGPEGDFTEKEVSMMVEAGAKAVSLGPHRLRVETATIGLLAAVMLWSDSQ

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	PIRSF015601 View details on PIRSF015601 Search for proteins/transripts with this domain View external data on PIRSF015601	1	214	214	2.0E-44	IPR006700 Show description in modal box View details on IPR006700 Search for proteins/transripts with this domain View on EBI InterPro Service
PANTHER	PTHR30027 View details on PTHR30027 Search for proteins/transripts with this domain View external data on PTHR30027	1	214	214	2.0E-93	IPR006700 Show description in modal box View details on IPR006700 Search for proteins/transripts with this domain View on EBI InterPro Service
Pfam	PF04452 View details on PF04452 Search for proteins/transripts with this domain View external data on PF04452	1	209	209	2.4E-49	IPR006700 Show description in modal box View details on IPR006700 Search for proteins/transripts with this domain View on EBI InterPro Service
Gene3D	G3DSA:3.40.1280.10 View details on G3DSA:3.40.1280.10 Search for proteins/transripts with this domain View external data on G3DSA:3.40.1280.10	1	214	214	1.4E-54	IPR029026 Show description in modal box View details on IPR029026 Search for proteins/transripts with this domain View on EBI InterPro Service
TIGRFAM	TIGR00046 View details on TIGR00046 Search for proteins/transripts with this domain View external data on TIGR00046	2	209	208	9.6E-33	IPR006700 Show description in modal box View details on IPR006700 Search for proteins/transripts with this domain View on EBI InterPro Service
SUPERFAMILY	SSF75217 View details on SSF75217 Search for proteins/transripts with this domain View external data on SSF75217	51	212	162	3.77E-35	IPR029028 Show description in modal box View details on IPR029028 Search for proteins/transripts with this domain View on EBI InterPro Service
CDD	cd18084 View details on cd18084 Search for proteins/transripts with this domain View external data on cd18084	53	208	156	7.16168E-48	–

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:0006364 View details of GO:0006364 AmiGO InterPro QuickGO	Biological process	RRNA processing	Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.	Subterm of View details of GO:0016072 View details of GO:0034470 Part of View details of GO:0042254
GO:0008168 View details of GO:0008168 AmiGO InterPro QuickGO	Molecular function	Methyltransferase activity	Catalysis of the transfer of a methyl group to an acceptor molecule.	Subterm of View details of GO:0016741

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Expression data

Expression pattern

Expression pattern of LotjaGi1g1v0174700.2, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi1g1v0174700.2