Glyma04g01610 - SoyBase

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Report for Sequence Feature Glyma04g01610

Feature Type:	gene_model
Chromosome:	Gm04
Start:	1074958
stop:	1077388
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g01610

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G76450	AT	Annotation by Michelle Graham. TAIR10: Photosystem II reaction center PsbP family protein \| chr1:28684618-28686109 FORWARD LENGTH=247	SoyBase	E_val: 2.00E-83	ISS
GO:0000023	GO-bp	Annotation by Michelle Graham. GO Biological Process: maltose metabolic process	SoyBase	N/A	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:0009637	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to blue light	SoyBase	N/A	ISS
GO:0009902	GO-bp	Annotation by Michelle Graham. GO Biological Process: chloroplast relocation	SoyBase	N/A	ISS
GO:0010027	GO-bp	Annotation by Michelle Graham. GO Biological Process: thylakoid membrane organization	SoyBase	N/A	ISS
GO:0010114	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to red light	SoyBase	N/A	ISS
GO:0010218	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to far red light	SoyBase	N/A	ISS
GO:0015979	GO-bp	Annotation by Michelle Graham. GO Biological Process: photosynthesis	SoyBase	N/A	ISS
GO:0015995	GO-bp	Annotation by Michelle Graham. GO Biological Process: chlorophyll biosynthetic process	SoyBase	N/A	ISS
GO:0019252	GO-bp	Annotation by Michelle Graham. GO Biological Process: starch biosynthetic process	SoyBase	N/A	ISS
GO:0034660	GO-bp	Annotation by Michelle Graham. GO Biological Process: ncRNA metabolic process	SoyBase	N/A	ISS
GO:0042793	GO-bp	Annotation by Michelle Graham. GO Biological Process: transcription from plastid promoter	SoyBase	N/A	ISS
GO:0009507	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast	SoyBase	N/A	ISS
GO:0009535	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast thylakoid membrane	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: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_G7J6G6	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: PsbP domain-containing protein n=1 Tax=Medicago truncatula RepID=G7J6G6_MEDTR	SoyBase	E_val: 2.00E-118	ISS
UniRef100_I1JSR3	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JSR3_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma04g01610

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 Glyma04g01610

Paralog	Evidence	Comments
Glyma06g01690	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 Glyma04g01610 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g014500	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g01610

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

Transcripts of Glyma04g01610

Limit To All Plant Sequences

>Glyma04g01610.2   sequence type=transcript   gene model=Glyma04g01610   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
CTATTATTTAAAAAAAAAATGTAAAAATAATAAAAATAGAAATGGAGGCAGAGAAGCTGATCTGAAAGGAATGGCGTCCATTTCGCGGTTCTGTTGTGTGCATATGCGAGCGTCTCTATGCAACTTCACAGCCCAGAAAGGTCCATCACCTCCCACAACCTTGGACTTGGAGCATCATAAAACAACACCATGTTTGCTTTCTTCCATCGAAGAAGGACGTGCGGTTAATAGGAGACAACTTATTCTTCACACGCCAGTAGCAGTAGCTGCATTTGCAGTCCCAAATGCATTGGCACTCAATGATGTGTCTGAGGATGTTCGTGTCTACACTGACGATGAGAACAAGTTCAAGATTGAGATTCCCCAAGAGTGGCAAGTGGGAACAGGAGACGGAGAATCTAGTGGGTTTAAATCCATAACTGCTTTCTACCCAACAGTGGCATCCAATTCCAATGTGAGCGTTGTGATCACAGGGCTGGGACCGGATTTCACTAGGATGGAATCCTTTGGCAAAGTTGACGAGTTTGCCCAGACTCTAGTTAGTGGGCTTGACAGAAGCTGGCGAAAACCCCCGGGTGTGGCTGCTAAACTCATAGATTGTAAATCATCTGATGGGATTTATTACATCGAGTATTCGCTGCAAAATCCCGGTGAGAGTCGCAGGTATTTATATTCAGCTATCGGGATGGCATCAAATGGTTGGTATAACAGACTGTATACGGTGACAGGACAGTATGTGGAAGAGGAAACAGACAAGTATGCTTCAAAAGTTCAGAAGGTAGTTGCATCATTTAGGTTCATATGATGAACATGGTCATGACGAGGAAGAAATTTTCTCACAGCCCTTCTTCATCTTTTCTATTTCATAACGGATTTGTGTCTGCTTAGATCTTTTCTATTCTGGCTCCCCTCAGATTTTCCTGGCATTGTTCTTAAGCTATAAATGGCATTCCAGATCAGACTAGTATGATAAAAACCATGACATTTCCTTCAAGATTGTTGAATGAAAGTAATATACTTGTGGCCATACATAATCTAGGGGGGAAATTATCATTTTATCTCTTCTATTTTTCGCTTTATGTATTCTTCTTTTCA

Coding sequences of Glyma04g01610

Limit To All Plant Sequences

>Glyma04g01610.1   sequence type=CDS   gene model=Glyma04g01610   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCGTCCATTTCGCGGTTCTGTTGTGTGCATATGCGAGCGTCTCTATGCAACTTCACAGCCCAGAAAGGTCCATCACCTCCCACAACCTTGGACTTGGAGCATCATAAAACAACACCATGTTTGCTTTCTTCCATCGAAGAAGGACGTGCGGTTAATAGGAGACAACTTATTCTTCACACGCCAGTAGCAGTAGCTGCATTTGCAGTCCCAAATGCATTGGCACTCAATGATGTGTCTGAGGATGTTCGTGTCTACACTGACGATGAGAACAAGTTCAAGATTGAGATTCCCCAAGAGTGGCAAGTGGGAACAGGAGACGGAGAATCTAGTGGGTTTAAATCCATAACTGCTTTCTACCCAACAGTGGCATCCAATTCCAATGTGAGCGTTGTGATCACAGGGCTGGGACCGGATTTCACTAGGATGGAATCCTTTGGCAAAGTTGACGAGTTTGCCCAGACTCTAGTTAGTGGGCTTGACAGAAGCTGGCGAAAACCCCCGGGTGTGGCTGCTAAACTCATAGATTGTAAATCATCTGATGGGATTTATTACATCGAGTATTCGCTGCAAAATCCCGGTGAGAGTCGCAGGTATTTATATTCAGCTATCGGGATGGCATCAAATGGTTGGTATAACAGACTGTATACGGTGACAGGACAGTATGTGGAAGAGGAAACAGACAAGTATGCTTCAAAAGTTCAGAAGGTGATTTTTTTTTTTTTTGTTATCATACTCCGTTATTTGACAGAAGTACGTAGGTCATGA

>Glyma04g01610.2   sequence type=CDS   gene model=Glyma04g01610   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCGTCCATTTCGCGGTTCTGTTGTGTGCATATGCGAGCGTCTCTATGCAACTTCACAGCCCAGAAAGGTCCATCACCTCCCACAACCTTGGACTTGGAGCATCATAAAACAACACCATGTTTGCTTTCTTCCATCGAAGAAGGACGTGCGGTTAATAGGAGACAACTTATTCTTCACACGCCAGTAGCAGTAGCTGCATTTGCAGTCCCAAATGCATTGGCACTCAATGATGTGTCTGAGGATGTTCGTGTCTACACTGACGATGAGAACAAGTTCAAGATTGAGATTCCCCAAGAGTGGCAAGTGGGAACAGGAGACGGAGAATCTAGTGGGTTTAAATCCATAACTGCTTTCTACCCAACAGTGGCATCCAATTCCAATGTGAGCGTTGTGATCACAGGGCTGGGACCGGATTTCACTAGGATGGAATCCTTTGGCAAAGTTGACGAGTTTGCCCAGACTCTAGTTAGTGGGCTTGACAGAAGCTGGCGAAAACCCCCGGGTGTGGCTGCTAAACTCATAGATTGTAAATCATCTGATGGGATTTATTACATCGAGTATTCGCTGCAAAATCCCGGTGAGAGTCGCAGGTATTTATATTCAGCTATCGGGATGGCATCAAATGGTTGGTATAACAGACTGTATACGGTGACAGGACAGTATGTGGAAGAGGAAACAGACAAGTATGCTTCAAAAGTTCAGAAGGTAGTTGCATCATTTAGGTTCATATGA

Predicted protein sequences of Glyma04g01610

Limit To All Plant Sequences

>Glyma04g01610.1   sequence type=predicted peptide   gene model=Glyma04g01610   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MASISRFCCVHMRASLCNFTAQKGPSPPTTLDLEHHKTTPCLLSSIEEGRAVNRRQLILHTPVAVAAFAVPNALALNDVSEDVRVYTDDENKFKIEIPQEWQVGTGDGESSGFKSITAFYPTVASNSNVSVVITGLGPDFTRMESFGKVDEFAQTLVSGLDRSWRKPPGVAAKLIDCKSSDGIYYIEYSLQNPGESRRYLYSAIGMASNGWYNRLYTVTGQYVEEETDKYASKVQKVIFFFFVIILRYLTEVRRS*

>Glyma04g01610.2   sequence type=predicted peptide   gene model=Glyma04g01610   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MASISRFCCVHMRASLCNFTAQKGPSPPTTLDLEHHKTTPCLLSSIEEGRAVNRRQLILHTPVAVAAFAVPNALALNDVSEDVRVYTDDENKFKIEIPQEWQVGTGDGESSGFKSITAFYPTVASNSNVSVVITGLGPDFTRMESFGKVDEFAQTLVSGLDRSWRKPPGVAAKLIDCKSSDGIYYIEYSLQNPGESRRYLYSAIGMASNGWYNRLYTVTGQYVEEETDKYASKVQKVVASFRFI*

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