Glyma16g02080 - SoyBase

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Report for Sequence Feature Glyma16g02080

Feature Type:	gene_model
Chromosome:	Gm16
Start:	1599962
stop:	1601952
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma16g02080

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G01080	AT	Annotation by Michelle Graham. TAIR10: RNA-binding (RRM/RBD/RNP motifs) family protein \| chr1:45503-46789 REVERSE LENGTH=293	SoyBase	E_val: 3.00E-59	ISS
GO:0006655	GO-bp	Annotation by Michelle Graham. GO Biological Process: phosphatidylglycerol biosynthetic process	SoyBase	N/A	ISS
GO:0008150	GO-bp	Annotation by Michelle Graham. GO Biological Process: biological process	SoyBase	N/A	ISS
GO:0010103	GO-bp	Annotation by Michelle Graham. GO Biological Process: stomatal complex morphogenesis	SoyBase	N/A	ISS
GO:0019288	GO-bp	Annotation by Michelle Graham. GO Biological Process: isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0009507	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast	SoyBase	N/A	ISS
GO:0009570	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast stroma	SoyBase	N/A	ISS
GO:0009941	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast envelope	SoyBase	N/A	ISS
GO:0000166	GO-mf	Annotation by Michelle Graham. GO Molecular Function: nucleotide binding	SoyBase	N/A	ISS
GO:0003676	GO-mf	Annotation by Michelle Graham. GO Molecular Function: nucleic acid binding	SoyBase	N/A	ISS
GO:0003723	GO-mf	Annotation by Michelle Graham. GO Molecular Function: RNA binding	SoyBase	N/A	ISS
KOG0114	KOG	Predicted RNA-binding protein (RRM superfamily)	JGI		ISS
PTHR24012	Panther	FAMILY NOT NAMED	JGI		ISS
PTHR24012:SF56	Panther	SUBFAMILY NOT NAMED	JGI		ISS
PF00076	PFAM	RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)	JGI		ISS
UniRef100_B9RNK5	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Ribonucleoprotein, chloroplast, putative n=1 Tax=Ricinus communis RepID=B9RNK5_RICCO	SoyBase	E_val: 2.00E-63	ISS
UniRef100_UPI000233B90E	UniRef	Annotation by Michelle Graham. Best UniRef hit: UPI000233B90E related cluster n=1 Tax=unknown RepID=UPI000233B90E	SoyBase	E_val: 4.00E-176	ISS

Expression Patterns of Glyma16g02080

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

Glyma16g02080 not represented in the dataset	Glyma16g02080 not represented in the dataset
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 Glyma16g02080

Paralog	Evidence	Comments
Glyma07g05540	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 Glyma16g02080 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.16g018200	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma16g02080

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

Transcripts of Glyma16g02080

Limit To All Plant Sequences

>Glyma16g02080.3   sequence type=transcript   gene model=Glyma16g02080   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GAAAAAAGAAAAAGGAAGGAAAATGCCACCTAACAGTAACACTCTCTTTCACACTCACGCCTTCGTTGTTACACCCTCTTCTTCTTACTCTTCCGTGCACACCCTGAAACTGCAAAAACCTCAAGTGAAACGATTCGTTTTGCTGTTCGCATACCCAAGGCGTTCGCGCACGTTTCTAGAACCTTCTACTTCTTCTTCTTCTTTCTCTCCTGTGAGGAAAACTAAGGAAGTGGCTGAAGAATATGTTTACCCTCCCGAAAACGATGACGTTTTGGAGGACGAAGAAGAACGAGAGAAGAGGCTTGGAAAAGCGTGTGAAGTGTACGTGTGCAACCTGCCCCGAAGCTGTGACGCAGCATACTTACTTGATATGTTCAGGCCTTATGGAACCATTCTATCTATCGAGGTTTGCCGGAATGCTGAGAATAATGAAAGTAAGGGGTGTAGCTATGTGACACTGGGATCCATACACTCAGCAAGAAATGCAGTTGCTGCATTGGATGGATCAGATGTTGGTGGGTGCGAATTGCGGGTTAGATTTTCAATTGAGATGAATTCTAGAAGGAGGAGTTTTAACAAAATGAACTCTTCAACCAAGAGAATTTCATATTATGAATCTCCTCATAAGCTGTATGTTGGCAATCTTGCAAAGACTGTTAGACCCGAACAGAATTTTATGGTCGTACACTAATCGTTAAAGAGGGTGTAGAGAGGAGTGAGGACTGAGCCATAACTGCAGCTTTAGTGTCTGCATAATAATGGCAGCAATTTTGGTTTTTCACATGAATGAAGACTTGTAGTGTGTATAGCTGAGGCTTTTTGAACTAGAAAATTTTAGCTCAAAGAAGGGGTGAGCCTGACACTGCGGCAGTTCAGTAAAATAATGGATTCATTCTATTTTACTTCTCTTGTATTTCAAGTTGCAATGAGTGATATCAAAGAATTGTAGTGGAGACAATTTGAATTTTGAATTTAACCGTGGGATGAATACTACTACCATTACTATAACTGTTGCAGAGAATTGTGAAAATGAGAAAGTGAACAACC

>Glyma16g02080.4   sequence type=transcript   gene model=Glyma16g02080   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GAAAAAAGAAAAAGGAAGGAAAATGCCACCTAACAGTAACACTCTCTTTCACACTCACGCCTTCGTTGTTACACCCTCTTCTTCTTACTCTTCCGTGCACACCCTGAAACTGCAAAAACCTCAAGTGAAACGATTCGTTTTGCTGTTCGCATACCCAAGGCGTTCGCGCACGTTTCTAGAACCTTCTACTTCTTCTTCTTCTTTCTCTCCTGTGAGGAAAACTAAGGAAGTGGCTGAAGAATATGTTTACCCTCCCGAAAACGATGACGTTTTGGAGGACGAAGAAGAACGAGAGAAGAGGCTTGGAAAAGCGTGTGAAGTGTACGTGTGCAACCTGCCCCGAAGCTGTGACGCAGCATACTTACTTGATATGTTCAGGCCTTATGGAACCATTCTATCTATCGAGGTTTGCCGGAATGCTGAGAATAATGAAAGTAAGGGGTGTAGCTATGTGACACTGGGATCCATACACTCAGCAAGAAATGCAGTTGCTGCATTGGATGGATCAGTTTGTAGGGGGAAACTGTCTCTCCCTTGCTTGTATTAGATTTATCATGCCCTAGTTGTTTGATTCTATTTTTTTTCTGTTTTTGGCTGAAGGATGTTGGTGGGTGCGAATTGCGGGTTAGATTTTCAATTGAGATGAATTCTAGAAGGAGGAGTTTTAACAAAATGAACTCTTCAACCAAGAGAATTTCATATTATGAATCTCCTCATAAGCTGTATGTTGGCAATCTTGCAAAGACTGTTAGACCCGAACAGAATTTTATGGTCGTACACTAATCGTTAAAGAGGGTGTAGAGAGGAGTGAGGACTGAGCCATAACTGCAGCTTTAGTGTCTGCATAATAATGGCAGCAATTTTGGTTTTTCACATGAATGAAGACTTGTAGTGTGTATAGCTGAGGCTTTTTGAACTAGAAAATTTTAGCTCAAAGAAGGGGTGAGCCTGACACTGCGGCAGTTCAGTAAAATAATGGATTCATTCTATTTTACTTCTCTTGTATTTCAAGTTGCAATGAGTGATATCAAAGAATTGTAGTGGAGACAATTTGAATTTTGAATTTAACCGTGGGATGAATACTACTACCATTACTATAACTGTTGCAGAGAATTGTGAAAATGAGAAAGTGAACAACC

Coding sequences of Glyma16g02080

Limit To All Plant Sequences

>Glyma16g02080.2   sequence type=CDS   gene model=Glyma16g02080   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCCACCTAACAGTAACACTCTCTTTCACACTCACGCCTTCGTTGTTACACCCTCTTCTTCTTACTCTTCCGTGCACACCCTGAAACTGCAAAAACCTCAAGTGAAACGATTCGTTTTGCTGTTCGCATACCCAAGGCGTTCGCGCACGTTTCTAGAACCTTCTACTTCTTCTTCTTCTTTCTCTCCTGTGAGGAAAACTAAGGAAGTGGCTGAAGAATATGTTTACCCTCCCGAAAACGATGACGTTTTGGAGGACGAAGAAGAACGAGAGAAGAGGCTTGGAAAAGCGTGTGAAGTGTACGTGTGCAACCTGCCCCGAAGCTGTGACGCAGCATACTTACTTGATATGTTCAGGCCTTATGGAACCATTCTATCTATCGAGGTTTGCCGGAATGCTGAGAATAATGAAAGTAAGGGGTGTAGCTATGTGACACTGGGATCCATACACTCAGCAAGAAATGCAGTTGCTGCATTGGATGGATCAGATGTTGGTGGGTGCGAATTGCGGGTTAGATTTTCAATTGAGATGAATTCTAGAAGGAGGAGTTTTAACAAAATGAACTCTTCAACCAAGAGAATTTCATATTATGAATCTCCTCATAAGCTGTATGTTGGCAATCTTGCAAAGACTGTTAGACCCGAACAGTTGAGAGATCTCTTTTGCAGATTTGGAAATATAGTTAGTGCAAGAGTGTTGCGTGATTTTAAACAAGGGAACAGCCGAGTCTATGCCTTTCTCTCCTTTCAATCAGAGGCAGAAATTTGTTACTGTTATTTTTTAATTAGTTTGGTCTTTCTTGCAGGAATTTTATGGTCGTACACTAATCGTTAA

>Glyma16g02080.3   sequence type=CDS   gene model=Glyma16g02080   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCCACCTAACAGTAACACTCTCTTTCACACTCACGCCTTCGTTGTTACACCCTCTTCTTCTTACTCTTCCGTGCACACCCTGAAACTGCAAAAACCTCAAGTGAAACGATTCGTTTTGCTGTTCGCATACCCAAGGCGTTCGCGCACGTTTCTAGAACCTTCTACTTCTTCTTCTTCTTTCTCTCCTGTGAGGAAAACTAAGGAAGTGGCTGAAGAATATGTTTACCCTCCCGAAAACGATGACGTTTTGGAGGACGAAGAAGAACGAGAGAAGAGGCTTGGAAAAGCGTGTGAAGTGTACGTGTGCAACCTGCCCCGAAGCTGTGACGCAGCATACTTACTTGATATGTTCAGGCCTTATGGAACCATTCTATCTATCGAGGTTTGCCGGAATGCTGAGAATAATGAAAGTAAGGGGTGTAGCTATGTGACACTGGGATCCATACACTCAGCAAGAAATGCAGTTGCTGCATTGGATGGATCAGATGTTGGTGGGTGCGAATTGCGGGTTAGATTTTCAATTGAGATGAATTCTAGAAGGAGGAGTTTTAACAAAATGAACTCTTCAACCAAGAGAATTTCATATTATGAATCTCCTCATAAGCTGTATGTTGGCAATCTTGCAAAGACTGTTAGACCCGAACAGAATTTTATGGTCGTACACTAA

>Glyma16g02080.4   sequence type=CDS   gene model=Glyma16g02080   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCCACCTAACAGTAACACTCTCTTTCACACTCACGCCTTCGTTGTTACACCCTCTTCTTCTTACTCTTCCGTGCACACCCTGAAACTGCAAAAACCTCAAGTGAAACGATTCGTTTTGCTGTTCGCATACCCAAGGCGTTCGCGCACGTTTCTAGAACCTTCTACTTCTTCTTCTTCTTTCTCTCCTGTGAGGAAAACTAAGGAAGTGGCTGAAGAATATGTTTACCCTCCCGAAAACGATGACGTTTTGGAGGACGAAGAAGAACGAGAGAAGAGGCTTGGAAAAGCGTGTGAAGTGTACGTGTGCAACCTGCCCCGAAGCTGTGACGCAGCATACTTACTTGATATGTTCAGGCCTTATGGAACCATTCTATCTATCGAGGTTTGCCGGAATGCTGAGAATAATGAAAGTAAGGGGTGTAGCTATGTGACACTGGGATCCATACACTCAGCAAGAAATGCAGTTGCTGCATTGGATGGATCAGTTTGTAGGGGGAAACTGTCTCTCCCTTGCTTGTATTAG

Predicted protein sequences of Glyma16g02080

Limit To All Plant Sequences

>Glyma16g02080.2   sequence type=predicted peptide   gene model=Glyma16g02080   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MPPNSNTLFHTHAFVVTPSSSYSSVHTLKLQKPQVKRFVLLFAYPRRSRTFLEPSTSSSSFSPVRKTKEVAEEYVYPPENDDVLEDEEEREKRLGKACEVYVCNLPRSCDAAYLLDMFRPYGTILSIEVCRNAENNESKGCSYVTLGSIHSARNAVAALDGSDVGGCELRVRFSIEMNSRRRSFNKMNSSTKRISYYESPHKLYVGNLAKTVRPEQLRDLFCRFGNIVSARVLRDFKQGNSRVYAFLSFQSEAEICYCYFLISLVFLAGILWSYTNR*

>Glyma16g02080.3   sequence type=predicted peptide   gene model=Glyma16g02080   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MPPNSNTLFHTHAFVVTPSSSYSSVHTLKLQKPQVKRFVLLFAYPRRSRTFLEPSTSSSSFSPVRKTKEVAEEYVYPPENDDVLEDEEEREKRLGKACEVYVCNLPRSCDAAYLLDMFRPYGTILSIEVCRNAENNESKGCSYVTLGSIHSARNAVAALDGSDVGGCELRVRFSIEMNSRRRSFNKMNSSTKRISYYESPHKLYVGNLAKTVRPEQNFMVVH*

>Glyma16g02080.4   sequence type=predicted peptide   gene model=Glyma16g02080   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MPPNSNTLFHTHAFVVTPSSSYSSVHTLKLQKPQVKRFVLLFAYPRRSRTFLEPSTSSSSFSPVRKTKEVAEEYVYPPENDDVLEDEEEREKRLGKACEVYVCNLPRSCDAAYLLDMFRPYGTILSIEVCRNAENNESKGCSYVTLGSIHSARNAVAALDGSVCRGKLSLPCLY*

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