Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi1g1v0272900
Transcript ID	LotjaGi1g1v0272900.1
Lotus japonicus genome version	Gifu v1.2
Description	Photosystem II reaction center PsbP family protein; TAIR: AT1G77090.1 thylakoid lumenal protein (Mog1/PsbP/DUF1795-like photosystem II reaction center PsbP family protein); Swiss-Prot: sp\|O49292\|PPD4_ARATH PsbP domain-containing protein 4, chloroplastic; TrEMBL-Plants: tr\|A0A151TSA0\|A0A151TSA0_CAJCA Uncharacterized protein; Found in the gene: LotjaGi1g1v0272900
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr1:66885332..66889039) extracted from Lotus japonicus Gifu genome v1.2.

TTCACAAACAAGACAGCACCGAGTCCACAAAAATCCTAAGCTCAGCAACCTTAGCCTTCAAACCTCAACTTCTTCATTAA TCTTTCCATAATTTTCTGCCAAACTCTTTCTTCCTGTTTTCTCATGGACATGGCAACAGCCTTTTCCACGACCAGTGTGC TTTCTTGGAGGAACCCGCAGTGCATGCATAACCCTCTTCCTTCACACACACGTTGCCACTCTTCAGTCCAAGATGGAATT CTAAGAACTGTAGCTGCTTCAGGCTCAAAAGAGAACTGTTTGGTTGATGGAAAAACCGAGAAGTGTCCCTCTTTGTTGGT GAACAGAAGAGCAGTTTTGGCTTCTGGGGTTTCTTTGTTGTGTTTCCCAGGTGAGAGTTTGGCTGTGGTGAAACAAGGTC TTCTAGCAGGGAGAATTCCTGGCCTGTCTGAGCCAGATGAACAAGGTAAGTTTACTTTGGATCTTCAAAACATTATCTTT ATTTAGACTTTAGAGAGATCATTTCTATTTACCAGTCCTATGGTTGTCTAATTTAATAGAAATTGTTATTCGGTTGTTTG ACAGTTTGAGAATCCTTCTAAAAATTGATCTATATCCAAAATGAATTGTGGGGAGAAGTTTATCAACTACGGGGAGAAGT TTTTGTAAGTAGCTTTGGCTGTTAGAATTGATTCTATGGAAAAACTACCAATTACCAAATGATTATTCAAGGGAAAATAC TATATGTAGCATGTTTGGATCAAATTTTTTCTTTTCATCATAATCAATTTTGAAACCCATAAGCTACTCATGGAAACTTC TCTGTAGAATTGATTCTGGCTTCATAATGGCTTCAGAATCAATTGTGGAAGGGTTTCCAAACATGCACTTGGAAATCCTT ATAAAATTGATTCTATATCTAATATCAATTATGAGCAGAAACTTCTGGACTTCTGGTTTCAGAATTGATTCTAAGCAAAA ATAAGCTTATCGAAACATGGTTTTAATAGTTAATACTTAGTACCCTTTTGGAGGGTCAGCAAAGTTTATCAAGCTACCAA TTACCAAATGGTAATTCCAGGAATAAAAAATCTCTTCTCTTCCATTTGCAGGCTTAAGGGTAGCATGTGATGTCTAATTC TGAACCTGTGTTATTATATGTCTTTCAAATTGGTTTTGAATTCTTTCTTTTGTTATGGATTTTAAGTGAATGTGACATAA TGTAGGCAAATATTTGATCAGACAGGTTGGAGGACATATCGCAGGCCAGATGAGAAGTCAGGGGGACATGGTGTTGGGTG GAGTCCTATTATCCCATACACCTTCGCAGTGCCTCAAGAATGGGAAGAGGTGATGATTAATGGTTTCTTCTATTCATGAG TGGAAAAAATTCCTATATGATTTCTGTCCTGTCTCAACTGGTCTCAACTCCCAAGTATTAAAAAGTTGAAGTTAAGAAGC ACCGCACTCTCTCTCTTGGATTCACCCACATTCCTAAAATTTTGCTCTCCCACTCTCTTTCAGCCTCCAATCACTCTCCT TCACCAAAAGGTCCAAAACAAAATCTCTAGTTGTTCTTTCTCTCTAAACACAAACACAGCAGCAGCCACCTCTTGCTCTC ACCCACCAACCTTCAACCTTACAAAAAAATCTAACTCTCTTACTCATGTCTTCCACCATCAATCACTCTTCTGCTTCTCT GTTAACTGTCGTCTTCTTTTTCTCTGTTAAAATATAAAAATAATAATTGTTGCTATTGGTGTTAAAGCTTGCTGTCTGAT CTGTTTTCTGCTTTTAAGATCGTTTTTTTTTCTCTTGTTTAACTTTCCTTCACTGCACTTCTGCTTTTCTTTTTCTTTTT CCTTCTTTTACTGCCAATACAGCAAAATAGAACCTACTTCATCAACATATATGGAGGATCTGAAGCTGAGGCAGACAGTT GTTTTCTTTTCTTGGAGTCCTTTGTTTGTTTGCTATGTGGGTGATTACTTTTGGTGGTTTCAAAGTATGAATGGTTTTCA TAATAGAGGCAGGTGTGTGTGTGTGTATTTTTTTTACTGAAGCAGTGGTGCGGTGCCTTGTTTATGAAAATGCGGATGCC AAATCTATAATTATGAATGGGATGCTCAATCTTTTGTTCAATATAATACAAATGTAACTTTGGATGTGTGTACGCGCATG TTATATTTGGTCCGTGTGCGAATCCTTCCATATGATATGTTTTGGTTTTTGAAGTAAGTTAATTAATTGCGAATTTAATT TCAAAAAAACAAATTACAAAGTTTAAGTTAACAATGAAATTCCTTAGAATATGTCATGAAGTAACTTTTTGGGTGAGCAA TTTACTTGTCTTTTAATCAGGAAGATGTCTCCTTGAATTTGATCATTTGGAGGAGATCATAAGTTTTTTGTTATGACATG CTCGCTTAGATTTCTGTAAACTTCAGCATGCTTCTGCTTCACAGGTACCAGTATCAATAGCGGATCTTGGTGGCACAGAG ATAGATTTAAGATTTGCCAGCTCGAAGGAAGGACGCCTCTTTGTCATTGTTGCACCTGTTCTTAGGTTCTCGGATAGTGA GTTTGTCTACTTTTCTTTATCCATTTTAGTTTTCTGGAGACTAAACTATATTGAAACAGATTGAACTTGGAAACTTCTTG GTAGACTTTCCATTCATTACTTGGTTTAGATTATAACATTTTTACTGCACAGACCTTGGTGATGATGTGAAGATAGAACA AATCGGAACTCCAGACAAAGTGATCAGTGCTTTTGGTCCGGAAGTGATCGGGGAAAATGTCGAAGGGAAGGTTCTTAGTG CAAGTGTAGCAGAACATGAAGGAAGAACTTACTACCAATTTGAATTAGAGCCTCCTCATGTTTTGATTACTACAACTGCA GCTGGCAATCGCCTATACTTGTTTGGTATAACCGGCAGTGGTATAGTTCTGTATCCTCTTCTAAGTAGTTTGCTACATCA AGTCTGGAAAGCCATTAAAAAAGTTTACAGAATCCACAAGATTTCACTTTAAAAGAAAATCTAATGTTGTCTTAATTGCA GGCCTTCAATGGAAGAGACACTATAATGATTTGAAGAAGATTGCTGAATCTTTTAGAGTTGTATAATTGGAATCCTCTGG GAATAGAGAGATCCTATGTATGCAGCTTGTGCAGTATAGAAAAGAAGTTGTTTCCCAAAAAAATTGTGAGGCTGGGATTT CTCTGAATTGAGAGATCATATATGTAAAAGTCTTTGTAACTTCAACGTAATCAAATAATTTTGTCAAAATTTTATGCTGG TCAGAGTGGAAGGCAAATAGTCTGTTTAAAAGTTGACATAGCTTAGGGGTTGTAGTTCTCCCTTCTCAAGTACCAACCAA ATGCTATTCTTTCAGGTTTGATCATGGAACTTTTTAGTCATTACTAATAATTGACCCATCTCATAACTTAAAGAACTTAT CAATGAGGGCAATTTAGGAAAAGTATTAAAAATAACTACCTAACAGGGTTGTCCTCAGCTTCTTTCATCTCATGTCAGTT GATCTAAATGATCAACTTTTGATGATCTTACAAGTGCTATTAATTATTTATTTAAACTCCACACTAACTGTCTTTGATTA TAATCTTCATTAATTCTTCATCAATTATTGCGACTCGACCCTTATAGATGGGTGGGTAAACTGTCAAACTATAGACCGTG GAAATTGATTCAAGACCTTAATCTCATT

Download Genomic Sequence

CDS sequence (LotjaGi1g1v0272900.1) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGGACATGGCAACAGCCTTTTCCACGACCAGTGTGCTTTCTTGGAGGAACCCGCAGTGCATGCATAACCCTCTTCCTTC ACACACACGTTGCCACTCTTCAGTCCAAGATGGAATTCTAAGAACTGTAGCTGCTTCAGGCTCAAAAGAGAACTGTTTGG TTGATGGAAAAACCGAGAAGTGTCCCTCTTTGTTGGTGAACAGAAGAGCAGTTTTGGCTTCTGGGGTTTCTTTGTTGTGT TTCCCAGGTGAGAGTTTGGCTGTGGTGAAACAAGGTCTTCTAGCAGGGAGAATTCCTGGCCTGTCTGAGCCAGATGAACA AGGTTGGAGGACATATCGCAGGCCAGATGAGAAGTCAGGGGGACATGGTGTTGGGTGGAGTCCTATTATCCCATACACCT TCGCAGTGCCTCAAGAATGGGAAGAGGTACCAGTATCAATAGCGGATCTTGGTGGCACAGAGATAGATTTAAGATTTGCC AGCTCGAAGGAAGGACGCCTCTTTGTCATTGTTGCACCTGTTCTTAGGTTCTCGGATAACCTTGGTGATGATGTGAAGAT AGAACAAATCGGAACTCCAGACAAAGTGATCAGTGCTTTTGGTCCGGAAGTGATCGGGGAAAATGTCGAAGGGAAGGTTC TTAGTGCAAGTGTAGCAGAACATGAAGGAAGAACTTACTACCAATTTGAATTAGAGCCTCCTCATGTTTTGATTACTACA ACTGCAGCTGGCAATCGCCTATACTTGTTTGGTATAACCGGCAGTGGCCTTCAATGGAAGAGACACTATAATGATTTGAA GAAGATTGCTGAATCTTTTAGAGTTGTATAA

Download CDS Sequence

Protein sequence (LotjaGi1g1v0272900.1) extracted from Lotus japonicus Gifu v1.2 Proteins.

MDMATAFSTTSVLSWRNPQCMHNPLPSHTRCHSSVQDGILRTVAASGSKENCLVDGKTEKCPSLLVNRRAVLASGVSLLC FPGESLAVVKQGLLAGRIPGLSEPDEQGWRTYRRPDEKSGGHGVGWSPIIPYTFAVPQEWEEVPVSIADLGGTEIDLRFA SSKEGRLFVIVAPVLRFSDNLGDDVKIEQIGTPDKVISAFGPEVIGENVEGKVLSASVAEHEGRTYYQFELEPPHVLITT TAAGNRLYLFGITGSGLQWKRHYNDLKKIAESFRVV

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	PTHR31407 View details on PTHR31407 Search for proteins/transripts with this domain View external data on PTHR31407	27	275	249	7.8E-128	–
PANTHER	PTHR31407:SF38 View details on PTHR31407:SF38 Search for proteins/transripts with this domain View external data on PTHR31407:SF38	27	275	249	7.8E-128	–
SUPERFAMILY	SSF55724 View details on SSF55724 Search for proteins/transripts with this domain View external data on SSF55724	124	275	152	5.75E-26	IPR016123 Show description in modal box View details on IPR016123 Search for proteins/transripts with this domain View on EBI InterPro Service
Gene3D	G3DSA:3.40.1000.10 View details on G3DSA:3.40.1000.10 Search for proteins/transripts with this domain View external data on G3DSA:3.40.1000.10	129	276	148	2.4E-15	IPR016123 Show description in modal box View details on IPR016123 Search for proteins/transripts with this domain View on EBI InterPro Service
Pfam	PF01789 View details on PF01789 Search for proteins/transripts with this domain View external data on PF01789	132	275	144	1.1E-11	IPR002683 Show description in modal box View details on IPR002683 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:0005509 View details of GO:0005509 AmiGO InterPro QuickGO	Molecular function	Calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).	Subterm of View details of GO:0046872
GO:0009523 View details of GO:0009523 AmiGO InterPro QuickGO	Cellular component	Photosystem II	A photosystem that contains a pheophytin-quinone reaction center with associated accessory pigments and electron carriers. In cyanobacteria and chloroplasts, in the presence of light, PSII functions as a water-plastoquinone oxidoreductase, transferring electrons from water to plastoquinone, whereas other photosynthetic bacteria carry out anoxygenic photosynthesis and oxidize other compounds to re-reduce the photoreaction center.	Subterm of View details of GO:0009521
GO:0009654 View details of GO:0009654 AmiGO InterPro QuickGO	Cellular component	Photosystem II oxygen evolving complex	A complex, composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins, that catalyzes the splitting of water to O2 and 4 H+. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ).	Subterm of View details of GO:0044436 View details of GO:0098796 View details of GO:1990204 Part of View details of GO:0009523 View details of GO:0042651
GO:0015979 View details of GO:0015979 AmiGO InterPro QuickGO	Biological process	Photosynthesis	The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.	Subterm of View details of GO:0044237
GO:0019898 View details of GO:0019898 AmiGO InterPro QuickGO	Cellular component	Extrinsic component of membrane	The component of a membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.	Subterm of View details of GO:0044425

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Expression data

Expression pattern

Expression pattern of LotjaGi1g1v0272900.1, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi1g1v0272900.1