Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi5g1v0261900
Transcript ID	LotjaGi5g1v0261900.1
Lotus japonicus genome version	Gifu v1.2
Description	tRNA (cytidine(34)-2'-O)-methyltransferase; TAIR: AT5G26880.1 tRNA (cytidine(34)-2'-O)-methyltransferase; Swiss-Prot: sp\|P74516\|TRML_SYNY3 Putative tRNA (cytidine(34)-2'-O)-methyltransferase; TrEMBL-Plants: tr\|I3S4V5\|I3S4V5_LOTJA Uncharacterized protein; Found in the gene: LotjaGi5g1v0261900
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr5:57071811..57075687) extracted from Lotus japonicus Gifu genome v1.2.

TAGAATAACCCAATTTTAACAAATTATAATTTATGAGGCGCGCTCGAGTTCAACATTATCATATAGACACAAATCAGGAA TTGGAAACGAGTTTAGTGAGGGTTAAAAATGGCTAGTAATTGGAAAATAATTGTTACTAAACATCATTTTTTTTTTCGGA TAGACTAAAATCAAACTCATTTACAAATTCAAATTCATGGCCTAATCCAATAGAGTTTGAAACCATGAGCAGGATAGATA GATAGAGCACAACAGAGTCAGAGAGGAAGCAAAGGGCTAGAGCCTAGAGGGTGGTGGAGGTGTCAACAATGGACATCACC GGCCTCAAATCTCTCAACATGGGAAACCCATTTCGTTTTCGATCAAAAGTTTCTCTTTTTCGTCCATTATTCACTTCACT TCACTTCAAACCCATCACCCATTTTTCACCTCGCCTCTGTTCCTTTTGTTCTCTCAGTAAGAAGACCCTTCTCTAATGTC ACTTTTCTGGGCATCGTTGTTGTTCAATGAGACCAATGTTGTTGTTGTTGTTTACATGTTACAGATGGGTCAGCTGAGAC CAGCAAAGAAGGTTCTTTGCCCCAGGGTGTTGGAGGGGCAGTTAAGGAAGCATCACATTCCAGGATTCTTCAGGTTGTGT TGGTTTCCCCTCAGGTGAGAATGAGAATCAGCTTAAGTTTAGATTTTTCTTAATTATTTGTTTCATTGTTTCTTAACCAT TTGGAATTGCTTTGGCTGTCTTGTAACTTTATCTTAGTTTTGATGATGCATTATAGTATCTCAAAACTATGTAAAAAAAT AAAAAGATAGAATCAAAGATGATATTTATTAGAGAAAAAGGATGATGCACTGATGACAGTGTAAAGTTTTTTCACACCGT CAGTGCATAGAAATTAAACTCTATTTATTAATAATGGTTTAATTATGAAATTGGAACTGCAAGAAGTGTTGTTTTAGACT ATGGAACAACTGTTGGGTTGCTGGTACTTGGTACTGAATCAATCAATCTCTTTTGATGGGAGAAGGCTATTGAACCGATG AGAAGAAGCTTTAACAACGGACATATGGGGACATATACAGATCAGCACAAATACATAAAGTGTGGGAAAATGTATTCTGC TGCGCTTGTTCTGAGTATGAATCAATTGGCAAAAGAGGATTTTGATTATTGATGGAGGACCTAGTTGAGTTGGTGAAGAG TTGGAACTTGACTATTGTTAGAATTATGTAGTTGAAAACATATGGTTTCCTTTTCGATGTAAATAAAGGAGGAAAAGGTG AGAAGAGACTACATACGCTGAAAAGGATTATGCGGCAAACTTTGATGCCTCAGCTGCATTGTAATAGCATAATCGTAATA TTAAGGGATTAAATTCGGGATTTTTGCTACAGTATCATGTGTAGTGGAATGACTTTTCAAATATGCTCATTCTATGAAGC TTAAGCATCCCTACACAGCAACAGGAGTGCAAGGTGGTGGTCTGCAGGTCTGCTTACATGGAATATCTATATCCGTTGTG TGTGACTGATATCCTGTTTTCCTTAGCTATTTCTAGAAATATTTGTTTAAATTCCAAGGGACTAAGCTAAGGATGAGTTC TTCTTATCATCCTAAAACAGATGGGCGGAGTGAAATATTTAACTGTTGTTAGGAAACTCATATGAGGTGCTATATTTTTG AACAGCCAAAGAACTGGACATCATGGATTGATTGGCCTGAAGGGTGGTATAATGATACATTTATCATCTGACTACAGGCA CTGGTCCTGGATGAGTGCGAATTGTTAGTTGATAGCATACACATATTCAGTGTGAGACATACTGGATTATGTTGTCAAGG ATTTATCAGGGTTCAAAAACCTTGCTTTCATATAATTGTTAATTTCAATTTAGCTGAACAAGAAGGATTTGCTTTAGAGT TGTATATACCAAATTCTTACCCCTTTGGTTAGAACTCTGTTGTAGGATTAAATCCTACTAGTTTCCTGCTAAAAGATTAT TTTATTTATCCTTTTTTTAATAACCATACTTGTGAAATCTGCTCTCAATGTTACAAGAAAGGTTTGGTTTATGCCATTTT CCTGAATGTGTTCCTTAATCCTCTGACAATAGCTCCTATTCAAAAGAATGACCAATATATATGAAAATACTGATCTAAAT ATAACTTGACAGATTCTAATGAGGAATCACATATTTTTCAATTTAATATATTTGTTGAGGATATTGTGGTAAAAATAATA GTCATGAGTTTGAAAATGGTAACAAGATTGCTTTAAAAAAAGGATGAACAGTCTTGCAATCTTCACAGTCCAAGTATCCA GCTCTGGCATGAGGGGTGTGTTTAAGGTCACACATTGACTAGAGATATGACTAAATAAGTCTTTATAAATGGTAGTGGTA GGGTAATCCTCACTTCTAATTTCTAAGCTAGCTTGGTAATTTTGATTCAAGCGAATATTCTATTTTCAATCACTTCGAAA GAGTACTAAAGTTCAACCTCTCATAGTAAATTGGCCTCGGTAAACATATTTTTAGTTTAGATTTGAATCTTCTAATTACT GAAGGTTGCTCTTGGATTTGTGTTGTCCATGGTAGATTCCAGGAAACACCGGGTGCATTGCTAGAACATGTGCGGCATCA GCTGTTGGACTACACTTAGTTGGGGTGAGTTTTTCTCTCTTAAGTCAACCTTAACATTTGATGATGCTGTCTTATATTTT CACGATTGTTACTAAATACTAATAATAGCCTTTGTATTTTGTTTTTTACCTTTTCAGCCACTAGGATATAAAGTGGATGA TACTAAACTAAAACGAGCTGGATTGGACTACTGGCCGTATCCATGGATATATATACTTGTTTGAAGTTGAAACTTTTTTC ACATATGCATCTCTCCTGCTATTCTGGAAAAACTTTTCTACCATGCAGAGTAGTATGCAATTATCTATTGCTTGACTCTC ACCTCTAATTATAGTTTTGACTAGAAGAAGTGTGTTGTTTTTCAAATTTAGCGCTTCTAGTAGTTTCAATTTTCAAAACT GATCCAACATTGTGTTATTCGCGCTAAAACAAACTGTTTGACATAATTTCATTACTGTTTATTTTTGTTTTTCATTATTA ACATATTTCAGATATGTGGTTGTTAAAATTCATAATTCTTGGGAAGACTTTCGTGATTACTTCAGGCAACAGGTAATTAT CATTCAGAAAGATAAATTCCAGAAATCTCCATTACAATTTTCATCTGACTCCACATGTCACCATTGTTTGGTTCAGGAGG GTGAAAAGCGGCTGCTAGCATTTACAAAGAGGGGAACAAAAATTCATTCTGTGAGTTGCTCATTGTTAATTTTAATAGCA TAGTCCCTTAAGTGATGCATTTCTCCATTTGACGCATTTCTCCAAATCAAATCAATATAAAGAAATTATGAATGGGGCAA TAATTGTGGTTCCTTTTTACTTGCAGGAGTTTTCCTACAAAAAAGGTGATTATCTTTTATTTGGTGCTGAAACTACTGGC CTGCCACCTGAAGCCTTGTTAGACTGCAAGACTAAACCATTTGGTGGTGGGACTCTGAAGATCCCAATGGTTGAAACTTA TGTCAGATGTTTGAATCTCTCAGTAAGCGTTGGCATAGCTTTGTATGAAGCTTCTAGACAACTAAACTACGAGCAGTTTC AGATACCTTCAGAAACATGTATCCCTACTGAGGAAACACTTATTACTGAAGACATTCTTGCTTGATTATCTCTTTTTTCA AGTCATCTTTGAGTATTGTTTATTTATTGTGCTTGTCTCATCCAGAACAAGGTCATTAGTCCTAGTAATAATTGAAGAAT TGAAACATCTTTTTTGGTTGATCATCTTACATCAAAA

Download Genomic Sequence

CDS sequence (LotjaGi5g1v0261900.1) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGGACATCACCGGCCTCAAATCTCTCAACATGGGAAACCCATTTCGTTTTCGATCAAAAGTTTCTCTTTTTCGTCCATT ATTCACTTCACTTCACTTCAAACCCATCACCCATTTTTCACCTCGCCTCTGTTCCTTTTGTTCTCTCAATGGGTCAGCTG AGACCAGCAAAGAAGGTTCTTTGCCCCAGGGTGTTGGAGGGGCAGTTAAGGAAGCATCACATTCCAGGATTCTTCAGGTT GTGTTGGTTTCCCCTCAGATTCCAGGAAACACCGGGTGCATTGCTAGAACATGTGCGGCATCAGCTGTTGGACTACACTT AGTTGGGCCACTAGGATATAAAGTGGATGATACTAAACTAAAACGAGCTGGATTGGACTACTGGCCATATGTGGTTGTTA AAATTCATAATTCTTGGGAAGACTTTCGTGATTACTTCAGGCAACAGGAGGGTGAAAAGCGGCTGCTAGCATTTACAAAG AGGGGAACAAAAATTCATTCTGAGTTTTCCTACAAAAAAGGTGATTATCTTTTATTTGGTGCTGAAACTACTGGCCTGCC ACCTGAAGCCTTGTTAGACTGCAAGACTAAACCATTTGGTGGTGGGACTCTGAAGATCCCAATGGTTGAAACTTATGTCA GATGTTTGAATCTCTCAGTAAGCGTTGGCATAGCTTTGTATGAAGCTTCTAGACAACTAAACTACGAGCAGTTTCAGATA CCTTCAGAAACATGTATCCCTACTGAGGAAACACTTATTACTGAAGACATTCTTGCTTGA

Download CDS Sequence

Protein sequence (LotjaGi5g1v0261900.1) extracted from Lotus japonicus Gifu v1.2 Proteins.

MDITGLKSLNMGNPFRFRSKVSLFRPLFTSLHFKPITHFSPRLCSFCSLNGSAETSKEGSLPQGVGGAVKEASHSRILQV VLVSPQIPGNTGCIARTCAASAVGLHLVGPLGYKVDDTKLKRAGLDYWPYVVVKIHNSWEDFRDYFRQQEGEKRLLAFTK RGTKIHSEFSYKKGDYLLFGAETTGLPPEALLDCKTKPFGGGTLKIPMVETYVRCLNLSVSVGIALYEASRQLNYEQFQI PSETCIPTEETLITEDILA

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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	PTHR42971:SF2 View details on PTHR42971:SF2 Search for proteins/transripts with this domain View external data on PTHR42971:SF2	45	258	214	4.3E-107	–
PANTHER	PTHR42971 View details on PTHR42971 Search for proteins/transripts with this domain View external data on PTHR42971	45	258	214	4.3E-107	IPR016914 Show description in modal box View details on IPR016914 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	68	246	179	1.9E-61	IPR029026 Show description in modal box View details on IPR029026 Search for proteins/transripts with this domain View on EBI InterPro Service
Pfam	PF00588 View details on PF00588 Search for proteins/transripts with this domain View external data on PF00588	78	227	150	6.9E-30	IPR001537 Show description in modal box View details on IPR001537 Search for proteins/transripts with this domain View on EBI InterPro Service
Hamap	MF_01885 View details on MF_01885 Search for proteins/transripts with this domain View external data on MF_01885	78	236	159	31.269	IPR016914 Show description in modal box View details on IPR016914 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	78	237	160	3.14E-35	IPR029028 Show description in modal box View details on IPR029028 Search for proteins/transripts with this domain View on EBI InterPro Service
CDD	cd18094 View details on cd18094 Search for proteins/transripts with this domain View external data on cd18094	79	233	155	9.76646E-80	–

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:0001510 View details of GO:0001510 AmiGO InterPro QuickGO	Biological process	RNA methylation	Posttranscriptional addition of a methyl group to either a nucleotide or 2'-O ribose in a polyribonucleotide. Usually uses S-adenosylmethionine as a cofactor.	Subterm of View details of GO:0009451 View details of GO:0043414
GO:0003723 View details of GO:0003723 AmiGO InterPro QuickGO	Molecular function	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.	Subterm of View details of GO:0003676
GO:0006396 View details of GO:0006396 AmiGO InterPro QuickGO	Biological process	RNA processing	Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.	Subterm of View details of GO:0016070 Part of View details of GO:0010467
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
GO:0008173 View details of GO:0008173 AmiGO InterPro QuickGO	Molecular function	RNA methyltransferase activity	Catalysis of the transfer of a methyl group from a donor to a nucleoside residue in an RNA molecule.	Subterm of View details of GO:0008168 View details of GO:0140098

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Expression data

Expression pattern

Expression pattern of LotjaGi5g1v0261900.1, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi5g1v0261900.1