Transcript — View — Lotus Base

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LotjaGi5g1v0091500.1

Overview

Field	Value
Gene ID	LotjaGi5g1v0091500
Transcript ID	LotjaGi5g1v0091500.1
Lotus japonicus genome version	Gifu v1.2
Description	Ribosome production factor 2 like; TAIR: AT3G23620.1 Ribosomal RNA processing Brix domain protein; Swiss-Prot: sp\|Q9AWM9\|RPF2_ORYSJ Ribosome production factor 2 homolog; TrEMBL-Plants: tr\|A0A1J7IBE3\|A0A1J7IBE3_LUPAN Uncharacterized protein; Found in the gene: LotjaGi5g1v0091500
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr5:15979875..15982517) extracted from Lotus japonicus Gifu genome v1.2.

ACAAAATTGACAGAAAGAGGAAGAATCAAAATACAAAATCCCCATTCTTAAACCCTAAAACCTAAACCTAAAGCAGAGCA CACACTCCCAACGTTACGTTGTCTCTGCCTCCGCTACGGCTGCGATGTCGGAAATCAGAACCGCCAAGACGCGCCGGGGC AAACGCGAGCTCGAGAAGCGTGCTCCCAAACTCGTGAGCATCTCTTCTTCCTCGAATTTTCCGGGAAAATGGTTTTTCAT TGAATCAGGGGTAACCTGTGTGTGTGTTTGCAGGTTGAATCAGGGAAGAAGACGCTTATACTGCATGGGACGAAGACAAG CGGCGTGTTGAACGCCGTGTTGGCTCAGATTCATCACCTGAAGAAGGAAAACTCCATCAAGTACAGCCGCAAGAATGAAA GCATTAAGCCCTTTGAGAGTGGCGGCGAGACTTCTTTGGAGTTCTTTTCGCTTAAAACTGATTGCAGCATCTTTGTGGTA ATTTTCTCAATTTTTCTGAACCCTTGTTAATATTGACAAATAGGTGTTTTTTTATTTACCTGATTTTTGTGTTTTTGTGG CAACTCAAGTTATTCGATTCGTTGAGCTTCTATTGGTTTTTTAATTTTTTTATTAACTGTGCTTGAAAGTATTATTACTA ACTCACTAAAATAACTACATAGATATTTACACGCTAGATTACCATCGAGCTCAATGGCGTAGTGTGATCTATGTAGCCGA CCTTACTTAGTGGAATATGGCTTTTGTTGTTGTTGATGTAGTTGTTGTTGTTGATGTAGTTGTTGTTGTTGATGTAGTTG TTGTTGTTTACCATCTTCAAGCAGTTTTGGTCGAGTTCAATGGCGAAGTGTGATCCATGTAGCCGACATTACTTTGTGGG ATATTGTTTTTGTTGTTGTTGTTTACCATCTTCAAGCACCTAAGTTGTGGAGGGTTAGAATTTGAACTGTGTTCTTAAGC TATTTAAATTTGGTGGTGTTTGGGGTGATGCACATTTAGCTATGAAGGATGATCGGGGGGCAACTTGACTTGTCTTTAGA TTGTGTGTGCTAATATTGCTCTGAGTCTTGTAATGAAAGGATTTTTCTTCCAAATTACTTAAAGGTAGAGAATGATAGAT GTTAGTTTATGATAGCAATTGACATCTTGATATAGGCTTCTTCACCTCTTCCTATTAAAATTAATTGAGTTCCTTATTTC ATTTCTTAATCTTTTTTTCTTCTTGTATTTTGCAGTATGGATCTCACTCAAAGAAGCGACCTGATAACCTTGTTATAGGG AGAATGTATGATCACCATGTCTATGATCTAGTAGAAGTTGGGGTTGAAAAATTTAAACCCTTGGAGTCATTTAATTATGA TAAAAAAATAGCTCCAAAGGAAGGGACGAAACCTTTTATTGTTTTTATTGGAGAAGGATTTGAAGCTGTGGACGAGCTAA AACATTTGAAGGAAGTTTTGCTCGATCTTTTTCGGGGAGAGGTGCATATTTGCTTTACTTAGACTTGCTCACTCTCTTGT TGTCACCCAGAATTATTTTAATAGATGTGATACACCTTATTAATGCAGGTTGTAGAGAATCTGAATCTTGCTGGAGTGGA CCGGGCATATGTATGTACTGCCATATCTCCTAATAAGGTATTTTTTACTCACTGTGCATTGCGACTGAAAAAATCAGGCA CCACTGTGCCAAGAATGGAATTGGTTGAAGTTGGCCCTTCCATGGATCTGGTTATTCGTCGGCATCGTCCTCCTAATGAG AGTATCAGGAAGGAAGCCATGAGAATTACAAGAGAAAAGCCAAAGAAAAAGGTTGGCAAAATGTCTAAACCTTTCTAGTT TATCTGTTGATGTAAAATAAAATTTGTATGTCTAAATTGTTTATCTGTTCTGTTGCTCACAGGAGAAGAATGTTAAAGGG GATCCATTGGAAGGAAAGATTGGAAATGTTTATATTCCAGATCAGAAGGTAAGATTGAAGCAACTGTTGTAGTTATTTCC TGTCATAGGGATATGACCTGTGCTTATGTTCTTATTCTGTTCACTTATAGATATCTAACTAGTTATCCCAATTTGTGATT TGTTTAGATTGGTGAAATGGCTTTACCTAATTTAGCAAAGGGAGTGAAGAGGGAGCGCCGAGAAGCCAAGCGGAAAAACC AGAATGATGAACAAGCACCGAAAAGGAAGAAGGAAGAAGAATCTTAATATATTATAAACTACACATGTTGTCTTCTTTTG ATTATGAAGTGATCCATAGTGGATCAAATTATATCTAATTTCTTATCGCGTAGGTGACATGAATATTCTTTATTTCCCCT ACAAGTGAGAGTTTTGTCTTCATTTCATTTTCAGCACAATTTTTCCCTCAAAATTTTGTTTTAATCCATGAGTTTCATGA ATCGCTAGTTGTAACTTCATATTCTGTTGTTCGCATGTTCATTTATGTTGGTATCTATATATTTCATTTCTAATTAGATG GTGATGGATTATAACATTGTATTGACATGAGATGCTTGAGGGAAAAGAAAAGGAAGGTAAAAAGAATTCTTTGAAACAAA CACTCTAAATTGATTTGTTTAAAATTTGGGTGAGCATAAGATGGTTTTTTTCCAAAATAAATAAGTCTACATTTTTTATT AGG

Download Genomic Sequence

CDS sequence (LotjaGi5g1v0091500.1) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGTCGGAAATCAGAACCGCCAAGACGCGCCGGGGCAAACGCGAGCTCGAGAAGCGTGCTCCCAAACTCGTTGAATCAGG GAAGAAGACGCTTATACTGCATGGGACGAAGACAAGCGGCGTGTTGAACGCCGTGTTGGCTCAGATTCATCACCTGAAGA AGGAAAACTCCATCAAGTACAGCCGCAAGAATGAAAGCATTAAGCCCTTTGAGAGTGGCGGCGAGACTTCTTTGGAGTTC TTTTCGCTTAAAACTGATTGCAGCATCTTTGTGTATGGATCTCACTCAAAGAAGCGACCTGATAACCTTGTTATAGGGAG AATGTATGATCACCATGTCTATGATCTAGTAGAAGTTGGGGTTGAAAAATTTAAACCCTTGGAGTCATTTAATTATGATA AAAAAATAGCTCCAAAGGAAGGGACGAAACCTTTTATTGTTTTTATTGGAGAAGGATTTGAAGCTGTGGACGAGCTAAAA CATTTGAAGGAAGTTTTGCTCGATCTTTTTCGGGGAGAGGTTGTAGAGAATCTGAATCTTGCTGGAGTGGACCGGGCATA TGTATGTACTGCCATATCTCCTAATAAGGTATTTTTTACTCACTGTGCATTGCGACTGAAAAAATCAGGCACCACTGTGC CAAGAATGGAATTGGTTGAAGTTGGCCCTTCCATGGATCTGGTTATTCGTCGGCATCGTCCTCCTAATGAGAGTATCAGG AAGGAAGCCATGAGAATTACAAGAGAAAAGCCAAAGAAAAAGGAGAAGAATGTTAAAGGGGATCCATTGGAAGGAAAGAT TGGAAATGTTTATATTCCAGATCAGAAGATTGGTGAAATGGCTTTACCTAATTTAGCAAAGGGAGTGAAGAGGGAGCGCC GAGAAGCCAAGCGGAAAAACCAGAATGATGAACAAGCACCGAAAAGGAAGAAGGAAGAAGAATCTTAA

Download CDS Sequence

Protein sequence (LotjaGi5g1v0091500.1) extracted from Lotus japonicus Gifu v1.2 Proteins.

MSEIRTAKTRRGKRELEKRAPKLVESGKKTLILHGTKTSGVLNAVLAQIHHLKKENSIKYSRKNESIKPFESGGETSLEF FSLKTDCSIFVYGSHSKKRPDNLVIGRMYDHHVYDLVEVGVEKFKPLESFNYDKKIAPKEGTKPFIVFIGEGFEAVDELK HLKEVLLDLFRGEVVENLNLAGVDRAYVCTAISPNKVFFTHCALRLKKSGTTVPRMELVEVGPSMDLVIRRHRPPNESIR KEAMRITREKPKKKEKNVKGDPLEGKIGNVYIPDQKIGEMALPNLAKGVKRERREAKRKNQNDEQAPKRKKEEES

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
PANTHER	PTHR12728 View details on PTHR12728 Search for proteins/transripts with this domain View external data on PTHR12728	2	313	312	4.1E-137	IPR039770 Show description in modal box View details on IPR039770 Search for proteins/transripts with this domain View on EBI InterPro Service
ProSiteProfiles	PS50833 View details on PS50833 Search for proteins/transripts with this domain View external data on PS50833	28	238	211	23.97	IPR007109 Show description in modal box View details on IPR007109 Search for proteins/transripts with this domain View on EBI InterPro Service
SMART	SM00879 View details on SM00879 Search for proteins/transripts with this domain View external data on SM00879	31	232	202	7.9E-33	IPR007109 Show description in modal box View details on IPR007109 Search for proteins/transripts with this domain View on EBI InterPro Service
Pfam	PF04427 View details on PF04427 Search for proteins/transripts with this domain View external data on PF04427	35	231	197	8.7E-31	IPR007109 Show description in modal box View details on IPR007109 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	281	315	35	-	–
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	286	315	30	-	–
Coils	Coil View details on Coil Search for proteins/transripts with this domain	286	306	21	-	–

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:0000027 View details of GO:0000027 AmiGO InterPro QuickGO	Biological process	Ribosomal large subunit assembly	The aggregation, arrangement and bonding together of constituent RNAs and proteins to form the large ribosomal subunit.	Subterm of View details of GO:0022618 Part of View details of GO:0042255 View details of GO:0042273
GO:0000470 View details of GO:0000470 AmiGO InterPro QuickGO	Biological process	Maturation of LSU-rRNA	Any process involved in the maturation of a precursor Large SubUnit (LSU) ribosomal RNA (rRNA) molecule into a mature LSU-rRNA molecule.	Subterm of View details of GO:0006364 Part of View details of GO:0042273
GO:0019843 View details of GO:0019843 AmiGO InterPro QuickGO	Molecular function	RRNA binding	Interacting selectively and non-covalently with ribosomal RNA.	Subterm of View details of GO:0003723

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Expression data

Expression pattern

Expression pattern of LotjaGi5g1v0091500.1, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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