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LotjaGi5g1v0359600.2

Overview

Field	Value
Gene ID	LotjaGi5g1v0359600
Transcript ID	LotjaGi5g1v0359600.2
Related isoforms 2	LotjaGi5g1v0359600.1 LotjaGi5g1v0359600.3
Lotus japonicus genome version	Gifu v1.2
Description	U4/U6 small nuclear ribonucleoprotein Prp3; TAIR: AT1G28060.1 Pre-mRNA-splicing factor 3; Swiss-Prot: sp\|Q9C7E7\|RDM16_ARATH Protein RDM16; TrEMBL-Plants: tr\|A0A151SCZ2\|A0A151SCZ2_CAJCA U4/U6 small nuclear ribonucleoprotein Prp3; Found in the gene: LotjaGi5g1v0359600
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr5:67420014..67420829) extracted from Lotus japonicus Gifu genome v1.2.

CTGAAAATGGAAAAAATCACTTTTTATGTGGAGCATCCTCGTCCCATTGAGCCACCTGCTGAGCCTGCCCCACCTCCACC TCAACCCCTCAAGCTAACCAAGCAAGAACAGAAGAAACTCCGGACACAAAGGCGTATAGCTAAGGAGAAAGATAGACAGG AGATGATAAGACAGGGAGTCATAGAACCCCCAAAACCAAAGGTCAAGATTAGCAATTTAATGAAAGTACTTGGTGCTGAG GCAACTCAAGATCCTACTCGGCTTGAAAAGGAAATACGCAGTGCAGCTGCTGAGCGTGAGCAGGCCCACATAGATAGGAA CATTGCTCGCAAGCTCACTCCTGCTGAGCTGCGTGAGAAGAAGGAGAGGAAGCTGTTTGATGACCCAAATACAGTTGAGA CACTTGTCTCACTCTACAGGATAAACGATCTCTCTCATCCGAAGGCCCGCTTTAGAGTTGATGTTAATGCTCAAGAGAAC CGTTTGACTGGATGTGCTGTGATCAGCGATGGTATGAGTATTGTTGTGGTTGAAGGTGGAAGCAAGTCAATTAAGAGGTA TGGAAAGCTCATGCTTAGACGTATCAATTGGAGTGATGTTTCAAAAGAGAATGAAGAAAATGACGAGTCAGATGATGACA AGCCTGTCAATAAATGTGTTTTGGTGTGGCAAGGAAGTGTTGCCAAACCGAGCTTCAATAGGTTCAGTGTTCATGATTGC ATCACTGAAGCAGCTGCTCGAAAAGTCTTTGTGGATGCTGGTGTTCCTCATTATTGGGATCAAGCTGTCAACTACGTAGA TGATGGAGCTGTTTGA

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CDS sequence (LotjaGi5g1v0359600.2) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGGAAAAAATCACTTTTTATGTGGAGCATCCTCGTCCCATTGAGCCACCTGCTGAGCCTGCCCCACCTCCACCTCAACC CCTCAAGCTAACCAAGCAAGAACAGAAGAAACTCCGGACACAAAGGCGTATAGCTAAGGAGAAAGATAGACAGGAGATGA TAAGACAGGGAGTCATAGAACCCCCAAAACCAAAGGTCAAGATTAGCAATTTAATGAAAGTACTTGGTGCTGAGGCAACT CAAGATCCTACTCGGCTTGAAAAGGAAATACGCAGTGCAGCTGCTGAGCGTGAGCAGGCCCACATAGATAGGAACATTGC TCGCAAGCTCACTCCTGCTGAGCTGCGTGAGAAGAAGGAGAGGAAGCTGTTTGATGACCCAAATACAGTTGAGACACTTG TCTCACTCTACAGGATAAACGATCTCTCTCATCCGAAGGCCCGCTTTAGAGTTGATGTTAATGCTCAAGAGAACCGTTTG ACTGGATGTGCTGTGATCAGCGATGGTATGAGTATTGTTGTGGTTGAAGGTGGAAGCAAGTCAATTAAGAGGTATGGAAA GCTCATGCTTAGACGTATCAATTGGAGTGATGTTTCAAAAGAGAATGAAGAAAATGACGAGTCAGATGATGACAAGCCTG TCAATAAATGTGTTTTGGTGTGGCAAGGAAGTGTTGCCAAACCGAGCTTCAATAGGTTCAGTGTTCATGATTGCATCACT GAAGCAGCTGCTCGAAAAGTCTTTGTGGATGCTGGTGTTCCTCATTATTGGGATCAAGCTGTCAACTACGTAGATGATGG AGCTGTTTGA

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Protein sequence (LotjaGi5g1v0359600.2) extracted from Lotus japonicus Gifu v1.2 Proteins.

MEKITFYVEHPRPIEPPAEPAPPPPQPLKLTKQEQKKLRTQRRIAKEKDRQEMIRQGVIEPPKPKVKISNLMKVLGAEAT QDPTRLEKEIRSAAAEREQAHIDRNIARKLTPAELREKKERKLFDDPNTVETLVSLYRINDLSHPKARFRVDVNAQENRL TGCAVISDGMSIVVVEGGSKSIKRYGKLMLRRINWSDVSKENEENDESDDDKPVNKCVLVWQGSVAKPSFNRFSVHDCIT EAAARKVFVDAGVPHYWDQAVNYVDDGAV

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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	36	36	-	–
PANTHER	PTHR14212 View details on PTHR14212 Search for proteins/transripts with this domain View external data on PTHR14212	1	262	262	3.3E-155	IPR027104 Show description in modal box View details on IPR027104 Search for proteins/transripts with this domain View on EBI InterPro Service
Pfam	PF08572 View details on PF08572 Search for proteins/transripts with this domain View external data on PF08572	2	111	110	4.4E-43	IPR013881 Show description in modal box View details on IPR013881 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	13	29	17	-	–
Coils	Coil View details on Coil Search for proteins/transripts with this domain	28	50	23	-	–
Pfam	PF06544 View details on PF06544 Search for proteins/transripts with this domain View external data on PF06544	136	260	125	2.9E-41	IPR010541 Show description in modal box View details on IPR010541 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:0000398 View details of GO:0000398 AmiGO InterPro QuickGO	Biological process	MRNA splicing, via spliceosome	The joining together of exons from one or more primary transcripts of messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.	Subterm of View details of GO:0000377 View details of GO:0006397
GO:0046540 View details of GO:0046540 AmiGO InterPro QuickGO	Cellular component	U4/U6 x U5 tri-snRNP complex	A ribonucleoprotein complex formed by the association of the U4/U6 and U5 small nuclear ribonucleoproteins.	Subterm of View details of GO:0097526

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Expression data

Expression pattern

Expression pattern of LotjaGi5g1v0359600.2, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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