Glyma18g52340 - SoyBase

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Report for Sequence Feature Glyma18g52340

Feature Type:	gene_model
Chromosome:	Gm18
Start:	60969605
stop:	60973296
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma18g52340

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G55330	AT	Annotation by Michelle Graham. TAIR10: PsbP-like protein 1 \| chr3:20514031-20515275 REVERSE LENGTH=230	SoyBase	E_val: 4.00E-96	ISS
GO:0006098	GO-bp	Annotation by Michelle Graham. GO Biological Process: pentose-phosphate shunt	SoyBase	N/A	ISS
GO:0006364	GO-bp	Annotation by Michelle Graham. GO Biological Process: rRNA processing	SoyBase	N/A	ISS
GO:0009657	GO-bp	Annotation by Michelle Graham. GO Biological Process: plastid organization	SoyBase	N/A	ISS
GO:0010103	GO-bp	Annotation by Michelle Graham. GO Biological Process: stomatal complex morphogenesis	SoyBase	N/A	ISS
GO:0010207	GO-bp	Annotation by Michelle Graham. GO Biological Process: photosystem II assembly	SoyBase	N/A	ISS
GO:0015979	GO-bp	Annotation by Michelle Graham. GO Biological Process: photosynthesis	SoyBase	N/A	ISS
GO:0043085	GO-bp	Annotation by Michelle Graham. GO Biological Process: positive regulation of catalytic activity	SoyBase	N/A	ISS
GO:0009507	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast	SoyBase	N/A	ISS
GO:0009523	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: photosystem II	SoyBase	N/A	ISS
GO:0009543	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast thylakoid lumen	SoyBase	N/A	ISS
GO:0009579	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: thylakoid	SoyBase	N/A	ISS
GO:0009654	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: oxygen evolving complex	SoyBase	N/A	ISS
GO:0019898	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: extrinsic to membrane	SoyBase	N/A	ISS
GO:0030095	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast photosystem II	SoyBase	N/A	ISS
GO:0031977	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: thylakoid lumen	SoyBase	N/A	ISS
GO:0005509	GO-mf	Annotation by Michelle Graham. GO Molecular Function: calcium ion binding	SoyBase	N/A	ISS
PF01789	PFAM	PsbP	JGI		ISS
UniRef100_B9T155	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Thylakoid lumenal 25.6 kDa protein, chloroplast, putative n=1 Tax=Ricinus communis RepID=B9T155_RICCO	SoyBase	E_val: 2.00E-110	ISS
UniRef100_I1N528	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1N528_SOYBN	SoyBase	E_val: 2.00E-167	ISS

Expression Patterns of Glyma18g52340

Gene expression representations made with eFP at the University of Toronto.
Waese et al. 2017, Plant Cell 29(8):1806-1821 ePlant: Visualizing and Exploring Multiple Levels of Data for Hypothesis Generation in Plant Biology


Libault et al. 2010, Plant Phys 152(2):541-552. Complete Transcriptome of the Soybean Root Hair Cell, a Single-Cell Model, and Its Alteration in Response to Bradyrhizobium japonicum Infection	Severin et al. 2010, BMC Plant Biology 10:160 RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome

To see more experiments click HERE

Paralogs of Glyma18g52340

Paralog	Evidence	Comments
Glyma02g10540	IGC	Paralogs in soybean determined by Steven Cannon using BLAST, DAGChainer, PAML, and selection of gene pairs from synteny blocks with median Ks values of less than 0.3.

Gene model name correspondences to Glyma18g52340 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.18g286500	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma18g52340

Schmutz et al. 2010
Genome sequence of the palaeopolyploid soybean
Nature 2010, 463:178-183

Transcripts of Glyma18g52340

Limit To All Plant Sequences

>Glyma18g52340.2   sequence type=transcript   gene model=Glyma18g52340   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
AGATTGTTATATGGATAAGTGAAAGTTCCAAAAACTGAGTCCTCCACCACACAGAACAAACCAATACAAGTCACTTTGTTCTTTGCATTCTCACACAACAACAATGACGTCCCTGCAGAATTCACCAACGCTTCACCGAACTATGCTCCACAACTCTTTCCCTCAGAAGCATGCCACTCGTTCATCTCGAAGAGATGCCATTTCCTTCATTGTCAAAGCTGCCCAAGAACCCTCTGCTTCTTTAGCTTCTCAAGATAGACAAAGAAGGCGCCAAGTGATTGCCTTTGGAACCACTGCCCCATTAGTTTTTCTGTTCAACCAACACTCGAACTCTTTTGCTGCAGAAAATAAGAAGGGATTTTTGCCTGTTTTGGACAAGAAAGATGGATATTCATTTCTCTACCCTTTCGGGTGGCAGGAAGTAGTAATTGAAGGTCAAGATAAGGTGTTCAAAGATGTCATTGAACCACTGGAGAACGTCAGTGTAAATGTGATACCAACTGGCAAACAGGATATTACAGAATTTGGGTCCCCTCAAGAGGTTGCTGAAACTCTAATAAAAAAGGTTTTGGCACCTCCAAACCAGAAAACCAAGATAGTAGAAGCAAAAGAGCAAGATGTTGAAGGAAAAAAGTACTATCAATTTGAGTTCATTGCTAAGGCTCCAAACTATACTCGTCATGCTCTCAGCACAGTCTCCATTGGCAATGGTAAGTTTTACACCTTAACAACAGGAGCAAACGAGAGAAGATGGGACAAGATGAAAGACAGGCTGCAGACAGTCATAGAATCCTTCAAAATTTTCGATGTTTGATAATGATCCTTACTATTACCATTTACCATATTAGAGATATTAAACTCTTCAGCGAGAATGTTCATTTGAGCTTTATAGTCCCAAGTTTAATCTGTTTGCTTATAACTTTATCCAAATATATGTACAATAAATGAGTAATGCATTGTATAAAAAAGGGGGGAAATTCTTATGCATACAGCAAAA

Coding sequences of Glyma18g52340

Limit To All Plant Sequences

>Glyma18g52340.1   sequence type=CDS   gene model=Glyma18g52340   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGACGTCCCTGCAGAATTCACCAACGCTTCACCGAACTATGCTCCACAACTCTTTCCCTCAGCATGCCACTCGTTCATCTCGAAGAGATGCCATTTCCTTCATTGTCAAAGCTGCCCAAGAACCCTCTGCTTCTTTAGCTTCTCAAGATAGACAAAGAAGGCGCCAAGTGATTGCCTTTGGAACCACTGCCCCATTAGTTTTTCTGTTCAACCAACACTCGAACTCTTTTGCTGCAGAAAATAAGAAGGGATTTTTGCCTGTTTTGGACAAGAAAGATGGATATTCATTTCTCTACCCTTTCGGGTGGCAGGAAGTAGTAATTGAAGGTCAAGATAAGGTGTTCAAAGATGTCATTGAACCACTGGAGAACGTCAGTGTAAATGTGATACCAACTGGCAAACAGGATATTACAGAATTTGGGTCCCCTCAAGAGGTTGCTGAAACTCTAATAAAAAAGGTTTTGGCACCTCCAAACCAGAAAACCAAGATAGTAGAAGCAAAAGAGCAAGATGTTGAAGGAAAAAAGTACTATCAATTTGAGTTCATTGCTAAGGCTCCAAACTATACTCGTCATGCTCTCAGCACAGTCTCCATTGGCAATGGTAAGTTTTACACCTTAACAACAGGAGCAAACGAGAGAAGATGGGACAAGATGAAAGACAGGCTGCAGACAGTCATAGAATCCTTCAAAATTTTCGATGTTTGA

>Glyma18g52340.2   sequence type=CDS   gene model=Glyma18g52340   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGACGTCCCTGCAGAATTCACCAACGCTTCACCGAACTATGCTCCACAACTCTTTCCCTCAGAAGCATGCCACTCGTTCATCTCGAAGAGATGCCATTTCCTTCATTGTCAAAGCTGCCCAAGAACCCTCTGCTTCTTTAGCTTCTCAAGATAGACAAAGAAGGCGCCAAGTGATTGCCTTTGGAACCACTGCCCCATTAGTTTTTCTGTTCAACCAACACTCGAACTCTTTTGCTGCAGAAAATAAGAAGGGATTTTTGCCTGTTTTGGACAAGAAAGATGGATATTCATTTCTCTACCCTTTCGGGTGGCAGGAAGTAGTAATTGAAGGTCAAGATAAGGTGTTCAAAGATGTCATTGAACCACTGGAGAACGTCAGTGTAAATGTGATACCAACTGGCAAACAGGATATTACAGAATTTGGGTCCCCTCAAGAGGTTGCTGAAACTCTAATAAAAAAGGTTTTGGCACCTCCAAACCAGAAAACCAAGATAGTAGAAGCAAAAGAGCAAGATGTTGAAGGAAAAAAGTACTATCAATTTGAGTTCATTGCTAAGGCTCCAAACTATACTCGTCATGCTCTCAGCACAGTCTCCATTGGCAATGGTAAGTTTTACACCTTAACAACAGGAGCAAACGAGAGAAGATGGGACAAGATGAAAGACAGGCTGCAGACAGTCATAGAATCCTTCAAAATTTTCGATGTTTGA

Predicted protein sequences of Glyma18g52340

Limit To All Plant Sequences

>Glyma18g52340.1   sequence type=predicted peptide   gene model=Glyma18g52340   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MTSLQNSPTLHRTMLHNSFPQHATRSSRRDAISFIVKAAQEPSASLASQDRQRRRQVIAFGTTAPLVFLFNQHSNSFAAENKKGFLPVLDKKDGYSFLYPFGWQEVVIEGQDKVFKDVIEPLENVSVNVIPTGKQDITEFGSPQEVAETLIKKVLAPPNQKTKIVEAKEQDVEGKKYYQFEFIAKAPNYTRHALSTVSIGNGKFYTLTTGANERRWDKMKDRLQTVIESFKIFDV*

>Glyma18g52340.2   sequence type=predicted peptide   gene model=Glyma18g52340   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MTSLQNSPTLHRTMLHNSFPQKHATRSSRRDAISFIVKAAQEPSASLASQDRQRRRQVIAFGTTAPLVFLFNQHSNSFAAENKKGFLPVLDKKDGYSFLYPFGWQEVVIEGQDKVFKDVIEPLENVSVNVIPTGKQDITEFGSPQEVAETLIKKVLAPPNQKTKIVEAKEQDVEGKKYYQFEFIAKAPNYTRHALSTVSIGNGKFYTLTTGANERRWDKMKDRLQTVIESFKIFDV*

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