Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi1g1v0611800
Transcript ID	LotjaGi1g1v0611800.1
Related isoforms 2	LotjaGi1g1v0611800.2 LotjaGi1g1v0611800.3
Lotus japonicus genome version	Gifu v1.2
Description	Ribosomal RNA-processing protein 8; TAIR: AT5G40530.1 S-adenosyl-L-methionine-dependent methyltransferases superfamily protein; Swiss-Prot: sp\|Q84JC0\|RRP8_ARATH Ribosomal RNA-processing protein 8; TrEMBL-Plants: tr\|I3T493\|I3T493_LOTJA Uncharacterized protein; Found in the gene: LotjaGi1g1v0611800
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr1:115710904..115715156) extracted from Lotus japonicus Gifu genome v1.2.

TAGGAAAAGAACCCTAGGCTGCTGCAAGCAGCGTCGAAGCGTTTAACAATTTCATTCATTCAGAATTCTAAGTTCTAACA ATGACGAACAGCGAGGTTCGCAGCAAAAAACGCAAGAAATCCAGCAAACACCATGCACCAAACAACAACCACCATGGCGA TGAAGAGCAAGAGCTTCCTTCTTCAGATTCTGCTAAGCGTGCAAAGTCCAGCAAACCCTCCAAGCCTTCTGGGTTTCTGG AAAAGGCATGGCCTACCCCAGCTTCTCTTTTGTTCAATGCTTCGATCTTTCACTTCACATGGAAAGTTTGGTCTGAGTTT TTGAGATTTAATCAGTTTTTTTTTCAGATGCGGGCGAGGTTGTCTGGTGGGCATTTCAGGATGCTGAACGAGAAGCTATA CACTTGCACGTATGTTGTTGTGTACCAATCATTAATCCAATTGTTATTGCTGTTGTTGTTTTTGTTGTTGTTGTTGTTGT GTTTTGTTTTGTCCCCCGTTTTTCCTGAATTTTAAATTTGGATACTGAAAATTCTGCATTGGAAACTCAATAATTTGGCT TCTTTATGTGATTTGGGGGGTGAATTGGAAAGAAGGTTTTTTAGTTTTGTGGATGTTCATATCCAAATGGGATTGACTAG TGGTCTTGTTAGAGTCTTTTTGGTTTTGTTTTAGCTATTAAGGATTAGTTTAGATAATCCAATGACCCGAGTTGTGCATT GTTTTTCTTTTCTTTTCTTGTGATTACTTTTCGTCTTGACTAGTTAAGAATCTGTGTTATTCTTTTCAGTGGGAAGGAGG CGCTAGATTATTTCCAGGAAGATCCGTCCCTGTTTAACTTGGTGAGAGTTGTTTTCGTCGTCAATTTTTTTTTCTTCGAA TTCTAGTGTCATTAGGCATGGCTTAAAGTCAGAATTATGGTGTTGATTTGGTTCATGTAACTTCCCCTTTACTAGAAGGA TAGGATTTTTGTTGTTGTTGTTGTTGTTGTATAGTGTCATTGTTTCTGGTATGATAAAACCAGAGTTGGTTGATACTCAA AAACATTAAACTCAAAAGTTATAGCACATGTAGGCTCGTTGAGGTTTGAAGGACCAGCATTTGTGGTTTCAACTACAAAT ATGCATATTGTTAAAGATAAATTCAGATTCAGAAATGTACCCTGGAGAGTTAGAGTTAGAATTCATGAGAGACATATGGT TTAGGTCTTGTCTAGTGTTTCTTGCTAGACTGGTGACTGAGGTCTGTAACGTCTTACATATTAATCTATGGGCATGTATT ATAATGGTTTGAAATAGCTGTTCTTATTGGCCATCTCAATTTATCTTTCATATATCTGGCTAGTATCATGCAGGATATCA AACACAAATGTCGAATTGGCCTGAACAGCCGGTTAATGTAATTATTAAGTGGTTGAGAAAACAGAACCCATCTTTTGTTG TTGCTGACTTTGGTTGTGGTGAGAATTTACTGTGATTTTATTGTTATTTTACTTTGTTGTCTGACTTACACACAGCTAAT GCTTTCATGTTTCCATTCCATTCTAGGGGAAGCACTCATTGCTAATAGTGTGAAGAATACTGTCTTCTCTCTGGATCTTG TCTCTAATGATCCAAAAGTAATTGCTTGTGACATGGCAAATGTATGTCCTTCTACTTGTAAGGCTATCGTTCTGTGTAAA TGTTGGAAAGTTACTTCTGTAGCACTGGACAATCACAGTAGTTATAATATTTCTTGCCCTTGCCTTCATAATCAGATTTT GGTTACTTTTAGTTTTAGTCATGAAGAGTGGGTGCTAATCAAAAGGAGGAAAAAAAATTCAGTAGTTTCCATGCAAATTC CAATAATTTCAAAATGCAAAGCCCATAATGGAGAACAATGTCTAAGTTATATTGTAGATTTATGGTTAGATTACTTAAAC AAGGGTCCCGTCTGGAAGAGCTTATTTGAGCTTATCCGGCATAAAGCGCTTATGCAAGTGTTTGAGAGAGCTTATGTAAA TAGCTTTTGACTTATCTATAAGCCGTTTTGAGCTTATTTTCATAAGCTGTTCAGAATTCAGATTTGCTTATGAATAAGCG GTTATGCCTGCCTGTAATTTATTTTCATCTTATTTCAATAATTTTCTCAAATTATCTTAGAATACTGCTTATGCGATAAG CTTTTATTGTTATAAGCCCTTAATTAAGTTGTTTAAAAAAAGCAGTCATTCTCACTATGTAAATTACTAACAGGCTCCCA TTGTCTCGTCATCTGTTGATGTTGCTGTCTTCTGTCTTTCATTGATGGGAACCAACTACCAAAGTTACATTCAAGAAGCA TACAGGGTACTTAAACCAGGGTATGCATTTCGGTGTGCTTTTAAGCTTTTAGAACTTGACACTGCTTCCTAATCAGGTTC TGACTTGGTATAGTTTTGAACAGTGGGTGGCTTCTGATAGCAGAAGTTAAGAGTAGGTTTGATCCAAATACTGGAGGAGC AGATCCAGAAAAGTTCTCAAAGGCTATTTTGGAGCTAGGTTTCAACTCTGTGAAACAGGTATTTAGATGTTCCATTTCTT TACCTTGATAAATGTACAGTTGAGTTTGCTAACTGATATTTACACAATGCAGGACTTCTCCAATAAGATGTTTATTTTGT TTTACTTCACAAAAAAGGTATGTCTCGAATCGCAGTGAATCTGATTCTATTTTTCTCATTTGTTATTATGTTATCTGCAA ATCTTTCCCTCACCGCTGATTTAGCTTTTCTTGGTGTAGGAAAAGAAAAATTCTAAAAAGAACATTGAATGGCCAATGCT TAAACCTTGTTTGTACAAGCGTCGTTAGGATAATGGGAAATTTTCATTATTTTTCCTCAATTGTTGTCTTCACGAAAGTT AATTATATTTCTTTCATGTTAGCATGGCTAGTTAGTTCTTGTGTCCCCCGTTTATTCTTTTATTTTAAATGCATATTAGG AGTTACACCTGGTTTACAAATTGACTATGACTACCTAATATCCGAGGGATTTACTTCACTTCAAATATTGTTTTTCTTTG GTTTGTTAATTTTTGTGTCTAAAGTAAAAATGAGTGTATGTATTGATGACTGAGTTTTGAGGAACATATGGAGCACATGG AGACCCAGTTGCACCTTAGCAACCGAGTTGTCGGAATAGGGTCATTTTATCCTGTATAAAATGGATTAAAAGTTAGGGTG GTCTCTGAAACTTCCAGCAGCTGACACCCTGACATAGTCGTTATTGCTTGCATCATCTACCATTGTCACCATTGCCCAAT ACCTTCCAGAGTGAACTAAGGTGTGTATCAGGTGTTTATGGTAGTGGAGGGTTTCATGCGATTTTAGCAAGATTGGAGGG TGGCAATGGCGATGGTGAAAGGTAAAGGTGCTTGGGGGCGATGAAGGATGGAGGCTGTTGTATAGTCATGACGATGATAA ACTGTTTGGCAGTGGTGACAATACTATTGCATATACTAGGCTGACAACACTTTTTTTTATTTATTTATTGGAAAACCATA GAAAATTAAAAATGAAAGCATAAAAATGAAACTAGTTTTGATTTTCAGAATTTTTTTAACTAAATTTAACTACATTTTTT TAATCCAGAAGAATTAGGTAAAAAAACTTATATTAAGGGATAATAAGAGGACAAGAATGCTCAACTAGTTAATTTAGGGG ATGATGTAATGATTCAACACGACCCTTAAGTAAGTTTTTGGAGATTTGATTTTCAACTTTTATGAGTGAAAAAACTCATT GACCAAGCTCTTAGAGTATGTTAATCATGGAGTGAGATATTAGTTACATGACTACTGAATATACTGACACCTTAGTGAAG AGAAAAAGTACTACTCAATTAGTCATTGACAAACAAATAAAACTAGTCAACTCTTTATCAATAATGTTTCTAGTCAGTAT AAAAAAGCTACTCATATATCTTGTAATAATATTTGTTTAGCAATAAAAAGAGAATCGCTGTAATTTTCCTCAGAGGTGCG TGGACTAATTCATCAACTTTCCTACAAAACCAAAGAAATTTCACAACGTACCAAAATTCAACATTCAATTTTATCAATGC ACCATTGCACCCTGTGTTTCCAAGTTGTGAGTGGAAGACTGGAGCATGAAAGTACACTAATTTCGTTATCCACTAGCTCT ATGGTTCAATGCAGAGGGACCAAATCAGAATTGGTCCAAGATCTATTGCCAAAGCTTCTTCTTGTTATTATTGCTTTTAG AATATAGGACCCG

Download Genomic Sequence

CDS sequence (LotjaGi1g1v0611800.1) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGACGAACAGCGAGGTTCGCAGCAAAAAACGCAAGAAATCCAGCAAACACCATGCACCAAACAACAACCACCATGGCGA TGAAGAGCAAGAGCTTCCTTCTTCAGATTCTGCTAAGCGTGCAAAGTCCAGCAAACCCTCCAAGCCTTCTGGGTTTCTGG AAAAGGCATGGCCTACCCCAGCTTCTCTTTTGTTCAATGCTTCGATCTTTCACTTCACATGGAAAGTTTGGTCTGAGTTT TTGAGATTTAATCAGTTTTTTTTTCAGATGCGGGCGAGGTTGTCTGGTGGGCATTTCAGGATGCTGAACGAGAAGCTATA CACTTGCACTGGGAAGGAGGCGCTAGATTATTTCCAGGAAGATCCGTCCCTGTTTAACTTGTATCATGCAGGATATCAAA CACAAATGTCGAATTGGCCTGAACAGCCGGTTAATGTAATTATTAAGTGGTTGAGAAAACAGAACCCATCTTTTGTTGTT GCTGACTTTGGTTGTGGGGAAGCACTCATTGCTAATAGTGTGAAGAATACTGTCTTCTCTCTGGATCTTGTCTCTAATGA TCCAAAAGTAATTGCTTGTGACATGGCAAATGCTCCCATTGTCTCGTCATCTGTTGATGTTGCTGTCTTCTGTCTTTCAT TGATGGGAACCAACTACCAAAGTTACATTCAAGAAGCATACAGGGTACTTAAACCAGGTGGGTGGCTTCTGATAGCAGAA GTTAAGAGTAGGTTTGATCCAAATACTGGAGGAGCAGATCCAGAAAAGTTCTCAAAGGCTATTTTGGAGCTAGGTTTCAA CTCTGTGAAACAGGACTTCTCCAATAAGATGTTTATTTTGTTTTACTTCACAAAAAAGGAAAAGAAAAATTCTAAAAAGA ACATTGAATGGCCAATGCTTAAACCTTGTTTGTACAAGCGTCGTTAG

Download CDS Sequence

Protein sequence (LotjaGi1g1v0611800.1) extracted from Lotus japonicus Gifu v1.2 Proteins.

MTNSEVRSKKRKKSSKHHAPNNNHHGDEEQELPSSDSAKRAKSSKPSKPSGFLEKAWPTPASLLFNASIFHFTWKVWSEF LRFNQFFFQMRARLSGGHFRMLNEKLYTCTGKEALDYFQEDPSLFNLYHAGYQTQMSNWPEQPVNVIIKWLRKQNPSFVV ADFGCGEALIANSVKNTVFSLDLVSNDPKVIACDMANAPIVSSSVDVAVFCLSLMGTNYQSYIQEAYRVLKPGGWLLIAE VKSRFDPNTGGADPEKFSKAILELGFNSVKQDFSNKMFILFYFTKKEKKNSKKNIEWPMLKPCLYKRR

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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	53	53	-	–
PANTHER	PTHR12787 View details on PTHR12787 Search for proteins/transripts with this domain View external data on PTHR12787	16	308	293	3.0E-111	IPR007823 Show description in modal box View details on IPR007823 Search for proteins/transripts with this domain View on EBI InterPro Service
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	20	43	24	-	–
Pfam	PF05148 View details on PF05148 Search for proteins/transripts with this domain View external data on PF05148	89	308	220	6.1E-84	IPR007823 Show description in modal box View details on IPR007823 Search for proteins/transripts with this domain View on EBI InterPro Service
Gene3D	G3DSA:1.10.10.2150 View details on G3DSA:1.10.10.2150 Search for proteins/transripts with this domain View external data on G3DSA:1.10.10.2150	90	140	51	1.4E-22	IPR042036 Show description in modal box View details on IPR042036 Search for proteins/transripts with this domain View on EBI InterPro Service
SUPERFAMILY	SSF53335 View details on SSF53335 Search for proteins/transripts with this domain View external data on SSF53335	124	275	152	1.11E-17	IPR029063 Show description in modal box View details on IPR029063 Search for proteins/transripts with this domain View on EBI InterPro Service
Gene3D	G3DSA:3.40.50.150 View details on G3DSA:3.40.50.150 Search for proteins/transripts with this domain View external data on G3DSA:3.40.50.150	142	308	167	3.6E-56	–
CDD	cd02440 View details on cd02440 Search for proteins/transripts with this domain View external data on cd02440	160	238	79	2.45339E-5	–

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:0005730 View details of GO:0005730 AmiGO InterPro QuickGO	Cellular component	Nucleolus	A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.	Subterm of View details of GO:0043232 View details of GO:0044428 Part of View details of GO:0031981
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 LotjaGi1g1v0611800.1, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi1g1v0611800.1