Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi1g1v0210600
Transcript ID	LotjaGi1g1v0210600.2
Related isoforms 1	LotjaGi1g1v0210600.1
Lotus japonicus genome version	Gifu v1.2
Description	Pre-mRNA-splicing factor SLU7-like protein; TAIR: AT1G65660.1 Pre-mRNA splicing Prp18-interacting factor; Swiss-Prot: sp\|Q9SHY8\|SLU7A_ARATH Pre-mRNA-splicing factor SLU7-A; TrEMBL-Plants: tr\|I1N2J3\|I1N2J3_SOYBN Uncharacterized protein; Found in the gene: LotjaGi1g1v0210600
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr1:46071244..46074739) extracted from Lotus japonicus Gifu genome v1.2.

ATTGGGTTTATCGCAGTGGCATTTAAGTCGAGGGAGGATCATCGCAAACAGATTGAGTTGGAGGAAGCCCGTAAAGCTGG GCTTGCTCCAGCTGAGGTGGACGAAGATGGAAAGGAAATCAATCCCCATATTCCGCAGTATATGTCTTCTGCGCCTTGGT ATCTTAATGCTGAGAGACCTGTAAGTCTAACCTACAATTTTTTATTCATATATTGTTTATCTGCATGAAATTCTGATAAC CGACATATTCTTCTTGTTTTTCCCCCTCTTATCCTTGTAGAGTTTGAAACATCAAAGGAAATGGAAATCTGATCCCAACT ACACTAAATCATGGTATGATAGAGGTGCTAAAACATTTCAGGCTGACAAGTTCAGGAAAGGTGCATGTGAGAAGTAAGTG ATCTCTTTCCTTATTCTTCAAGGTGTGTGTGTATGTTGTGTCTCCAGATGCTTCTTGTTCATCAACTTAACATGAAAATG AAATATATTATTTGGTTGCTGAGAGGCCGATAATTTTATTTTTCCTGTGTTGGCGTCTTGTTCATAGCTGTTAAACTCTT CAGTTAGCTCTTATATGGGTTTAGGGTAACGTGCAGGTGAACACACTGTCAAACTAGTAAAAGTAAGTAAACTTGCACAA AATAGGATAGTTCAATTCTTCTGTTAGTTTACCGGCCTGGGTCTATTCATGGTTTCAGATTTCTTGGCTGATTTTATTGG ATAATTTAGTTAAGTTAAATCTCATAAGAAATATGTAATAATATCTAGGATTGGTTTATGGTTCAGCTTCAAGCACAAAA TTGAATCGATCTGAACTGGTTCTGGTTCGGCCAAAATGAGCTAAACTACTTGTTTTGTACAAGAACAAAACCAAATTGAC CTGGCTCTTTAATTCTCTGAACTGGTTCTGTGGTTTGGGGAACTGGTTGAATTGGATTACATAATAACTGGTTCAGAACC AGTTGAGGTTCAAGAACGTGTTCTGGAACCACCATTCAGCAGTGCATAAGAACCAATTTAAAATACTGTCTTTATATTCT TGAGAGCTTATTTTAGAATAGCCCTAATATGCAAGTACGAGGCGAAGCATATCATAACAGTTGGATCAATTATTGAATTA TGTATACTGTATTACTTTTCTCGTTTTCTTTGCTTCGTTTATTAAAAGATTCTTCTTTTTTACAGCTGTGGTGCAATGAC ACATGATGCAAAGTCATGTATGGAAAGACCACGAAAAGCAGGAGCAAAGTGGACAAACAAGCACATTGCCCCTGATGAAA AGGTAGAAACTTTTGAGCTTGACTATGATGGAAAACGGGACAGATGGAATGGGTATGATGCATCAACTTATGCTCGAGTC ATTGAGAGGTATGAAGCTAGAGATGAAGCTCGAAAGAAGTACTTGAAGGAACAACAGCTGAAGAAATTGGAGAAGAGTGA CCAAAATGGTGAGGGTTCTGCTAGTGATGAGGATGAAGACGAAGATGATCTAAGGGTAGATGAGGCAAAGGTTGATGAGA GCAAACAAATGGATTTTGCAAAGGTTGAGAAGCGAGTACGTACAACTGGTGGTGGGAGTACAGGAACTGTGAGGTAATTT TATGTTACTTCCATTTTAATAATGCAAGGTCAAATTAATTGGTTTCAGACTTAAGATTATCACTTTCATTATTTTTATTA GATGGATTGGAGCTGAAAGTTTGTCTTTTTTCTTTCAGGAACCTACGTATTCGAGAGGATACTGCAAAATATCTTCTTAA TCTTGAGGTCAATTCTGCTCATTATGATCCCAAGACCAGGTCAATGCGTGAAGATCCTCTTCCAGATGCAGATCCAAATG AGAAGTTTTATCTGGTAACTGTCTCAAAAAATCTAAATTTACAGGAAACTCTACTTTTGTTTTTACTGCTTATGCATGTT TATCTTGTATTTGTTTTAAATCTGATTTTATACTGTAGGGTGATAACCAATATAGAAATAGTGGTCAAGCTTTGGAATTC AAGGAATTAAACATCCATGCTTGGGAAGCATTTGACAAGGGGCAAGATGTTCATATGCAAGCAGCTCCATCCCAAGCTGA ATTGCTCTATAAGAATTTCAAGGTCATGAAGGAGAAATTGAAGTCTCAAACAAAGGATACTATCCTCGAGAAGTATGGCA ATGCAGCTGATGAGGACAAACTTCCAAGAGAACTTCTGCTTGGTCAGAGTGAGGGCCAAGTTGAGTATGATCGTGCTGGT AGAATTATTAAGGGACAGGTATGATACACATTTTAAATTTTATAGCCTAGCATTTGCAACGGTGGTATAAATCTTCTATA AAATGCTTAGCTGGACTTTTTAATTATTCTGTTAACAATTCTCAGTTTTACGATTGATTTTAGTTTGAACTATAAGGATA GCGCTTTCATGGTGTTGCTGTTTCTTAAGAATGATAGATTTAATTGTTATTTATCTGATGCTTCAAACAGGAAGCAGCAG TCCCCAGGAGCAAGTATGAAGAAGATGTTTACATTAACAACCACACAACTGTTTGGGGCTCTTGGTGGAAGGATCACCAA TGGGGCTTCAAGTGTTGCAAGCAGACAATACGTAATAGCTATTGTACCGGTGCTGCTGGTATTGCGGCTGCTGAGGCTGC AAATGACCTTATGAGGGCTAATATTGCCCGTAAGGAGGCTGCTGCAGGTTTGTATGCTGACACCGTGTCTCTATCTTCTC CTTTTTCCTTTGATGCAAATTATTTCTATTTTCATGTTTGATAATTTTGCTTGATCGTATTTAGCATCTTGTTATTAATT TTTAATTTTTTTGATGAATATGTCCAGAGGATGCTAAACCAATGGAGGAGAAAAGGCTGGCTACATGGGGAACTGATGTC CCTGATGACCTAGTTCTGGATGAAAAATTGCTTGCAGATGCACTCAAAAAGGTAATATCAATCTATCAGTCATATAACTT GCTCCTTAATACCTTGGTAATTTTCAGTGTCATTATTTTTCACATACTACCTCAATTAATTTTTGTTCCTTCCAATAACT TTGTTGTCCTTAATTACTGATGGTAAGACACCATTGTCTCATACTAAATATTGCATGTGATTTGTTAAATAATAATGGCA TGGTTTAGCTCTAGACTATGGGCATTCATTTTTTAGCATGATTCTTCTTTTCTGGAGCATTCAATCTTGTTGAGGACTTG AGGTGAAATATTCAGACATTTATGTCTGCATTTTGTGCTGATTGTTTTGGTTTTTCACAGGAGGATCAAAGAAAGAGAGA AGAGAAAGATGACAGGAAGCGTAAATATAATGTTAGATGGAACGATGAGGTATAGTTTTGGTGTCACTGATTGAGAATTA TTTTTATTATCTGTCTGCATGCCCTTTTGCAGATTTTTAAACCATTTTAATGCTGCAGGTTACTGCAGAGGATATGGAGG CATACAGGATGAAGAAAGTACATTCTGATGATCCAATGAAGGATTTCTTGAACTGA

Download Genomic Sequence

CDS sequence (LotjaGi1g1v0210600.2) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGTCTTCTGCGCCTTGGTATCTTAATGCTGAGAGACCTAGTTTGAAACATCAAAGGAAATGGAAATCTGATCCCAACTA CACTAAATCATGGTATGATAGAGGTGCTAAAACATTTCAGGCTGACAAGTTCAGGAAAGGTGCATGTGAGAACTGTGGTG CAATGACACATGATGCAAAGTCATGTATGGAAAGACCACGAAAAGCAGGAGCAAAGTGGACAAACAAGCACATTGCCCCT GATGAAAAGGTAGAAACTTTTGAGCTTGACTATGATGGAAAACGGGACAGATGGAATGGGTATGATGCATCAACTTATGC TCGAGTCATTGAGAGGTATGAAGCTAGAGATGAAGCTCGAAAGAAGTACTTGAAGGAACAACAGCTGAAGAAATTGGAGA AGAGTGACCAAAATGGTGAGGGTTCTGCTAGTGATGAGGATGAAGACGAAGATGATCTAAGGGTAGATGAGGCAAAGGTT GATGAGAGCAAACAAATGGATTTTGCAAAGGTTGAGAAGCGAGTACGTACAACTGGTGGTGGGAGTACAGGAACTGTGAG GAACCTACGTATTCGAGAGGATACTGCAAAATATCTTCTTAATCTTGAGGTCAATTCTGCTCATTATGATCCCAAGACCA GGTCAATGCGTGAAGATCCTCTTCCAGATGCAGATCCAAATGAGAAGTTTTATCTGGGTGATAACCAATATAGAAATAGT GGTCAAGCTTTGGAATTCAAGGAATTAAACATCCATGCTTGGGAAGCATTTGACAAGGGGCAAGATGTTCATATGCAAGC AGCTCCATCCCAAGCTGAATTGCTCTATAAGAATTTCAAGGTCATGAAGGAGAAATTGAAGTCTCAAACAAAGGATACTA TCCTCGAGAAGTATGGCAATGCAGCTGATGAGGACAAACTTCCAAGAGAACTTCTGCTTGGTCAGAGTGAGGGCCAAGTT GAGTATGATCGTGCTGGTAGAATTATTAAGGGACAGGAAGCAGCAGTCCCCAGGAGCAAGTATGAAGAAGATGTTTACAT TAACAACCACACAACTGTTTGGGGCTCTTGGTGGAAGGATCACCAATGGGGCTTCAAGTGTTGCAAGCAGACAATACGTA ATAGCTATTGTACCGGTGCTGCTGGTATTGCGGCTGCTGAGGCTGCAAATGACCTTATGAGGGCTAATATTGCCCGTAAG GAGGCTGCTGCAGAGGATGCTAAACCAATGGAGGAGAAAAGGCTGGCTACATGGGGAACTGATGTCCCTGATGACCTAGT TCTGGATGAAAAATTGCTTGCAGATGCACTCAAAAAGGAGGATCAAAGAAAGAGAGAAGAGAAAGATGACAGGAAGCGTA AATATAATGTTAGATGGAACGATGAGGTTACTGCAGAGGATATGGAGGCATACAGGATGAAGAAAGTACATTCTGATGAT CCAATGAAGGATTTCTTGAACTGA

Download CDS Sequence

Protein sequence (LotjaGi1g1v0210600.2) extracted from Lotus japonicus Gifu v1.2 Proteins.

MSSAPWYLNAERPSLKHQRKWKSDPNYTKSWYDRGAKTFQADKFRKGACENCGAMTHDAKSCMERPRKAGAKWTNKHIAP DEKVETFELDYDGKRDRWNGYDASTYARVIERYEARDEARKKYLKEQQLKKLEKSDQNGEGSASDEDEDEDDLRVDEAKV DESKQMDFAKVEKRVRTTGGGSTGTVRNLRIREDTAKYLLNLEVNSAHYDPKTRSMREDPLPDADPNEKFYLGDNQYRNS GQALEFKELNIHAWEAFDKGQDVHMQAAPSQAELLYKNFKVMKEKLKSQTKDTILEKYGNAADEDKLPRELLLGQSEGQV EYDRAGRIIKGQEAAVPRSKYEEDVYINNHTTVWGSWWKDHQWGFKCCKQTIRNSYCTGAAGIAAAEAANDLMRANIARK EAAAEDAKPMEEKRLATWGTDVPDDLVLDEKLLADALKKEDQRKREEKDDRKRKYNVRWNDEVTAEDMEAYRMKKVHSDD PMKDFLN

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	PTHR12942 View details on PTHR12942 Search for proteins/transripts with this domain View external data on PTHR12942	1	485	485	1.1E-199	IPR039974 Show description in modal box View details on IPR039974 Search for proteins/transripts with this domain View on EBI InterPro Service
Pfam	PF11708 View details on PF11708 Search for proteins/transripts with this domain View external data on PF11708	89	356	268	1.0E-94	IPR021715 Show description in modal box View details on IPR021715 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	130	161	32	-	–
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	142	156	15	-	–
Coils	Coil View details on Coil Search for proteins/transripts with this domain	383	405	23	-	–
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	438	458	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:0000386 View details of GO:0000386 AmiGO InterPro QuickGO	Molecular function	Second spliceosomal transesterification activity	Catalysis of the second transesterification reaction of spliceosomal mRNA splicing. Ligation of the two exons occurs via a transesterification reaction where the free 3'-hydroxyl group of the 5' exon is the nucleophile attacking the 3' splice site. Non-expressed sequences are now detached from the exons. In cis splicing, the intron is in a lariat structure.	Subterm of View details of GO:0140098
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:0030628 View details of GO:0030628 AmiGO InterPro QuickGO	Molecular function	Pre-mRNA 3'-splice site binding	Interacting selectively and non-covalently with the pre-mRNA 3' splice site sequence.	Subterm of View details of GO:0036002

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Expression data

Expression pattern

Expression pattern of LotjaGi1g1v0210600.2, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi1g1v0210600.2