Glyma16g05840 - SoyBase

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Report for Sequence Feature Glyma16g05840

Feature Type:	gene_model
Chromosome:	Gm16
Start:	5225911
stop:	5228879
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma16g05840

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G27010	AT	Annotation by Michelle Graham. TAIR10: TEOSINTE BRANCHED 1, cycloidea, PCF (TCP)-domain family protein 20 \| chr3:9957810-9958754 REVERSE LENGTH=314	SoyBase	E_val: 2.00E-75	ISS
GO:0008361	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of cell size	SoyBase	N/A	ISS
GO:0009653	GO-bp	Annotation by Michelle Graham. GO Biological Process: anatomical structure morphogenesis	SoyBase	N/A	ISS
GO:1900056	GO-bp	Annotation by Michelle Graham. GO Biological Process: negative regulation of leaf senescence	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0000987	GO-mf	Annotation by Michelle Graham. GO Molecular Function: core promoter proximal region sequence-specific DNA binding	SoyBase	N/A	ISS
GO:0003700	GO-mf	Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding transcription factor activity	SoyBase	N/A	ISS
GO:0005515	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein binding	SoyBase	N/A	ISS
GO:0043565	GO-mf	Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding	SoyBase	N/A	ISS
PTHR11584	Panther	SERINE/THREONINE PROTEIN KINASE	JGI		ISS
PTHR11584:SF275	Panther	SUBFAMILY NOT NAMED	JGI		ISS
PF03634	PFAM	TCP family transcription factor	JGI		ISS
UniRef100_B9RH46	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Transcription factor, putative n=1 Tax=Ricinus communis RepID=B9RH46_RICCO	SoyBase	E_val: 8.00E-121	ISS
UniRef100_I1MLF5	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1MLF5_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma16g05840

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 Glyma16g05840

Paralog	Evidence	Comments
Glyma19g26560	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 Glyma16g05840 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.16g053900	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma16g05840

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

Coding sequences of Glyma16g05840

Limit To All Plant Sequences

>Glyma16g05840.1   sequence type=CDS   gene model=Glyma16g05840   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGATCCCAAGGGCTCAAAGCAGCAGCCACAGCAATCACAGGAGGTGGTACCAAACTTCCTCAGCCTCCCCCAACAGCAACAAGGGAATACCAACAACAACAACATGGGAGAGAACAAACCTGCAGAGGTGAAGGATTTCCAGATAGTGGTAGCTGAGAACAAGGAAGAGAGCAAGAAACAGCAGCAACAGTTGGCACCAAAGAGGAGTTCCAACAAGGACAGGCACACCAAGGTTGAAGGCAGGGGAAGGAGGATAAGGATGCCTGCTCTCTGCGCAGCCAGAATCTTCCAGTTGACCAGGGAATTGGGTCACAAATCTGATGGGGAAACCATCCAGTGGCTCCTCCAGCAGGCTGAGCCATCCATCATAGCTGCCACTGGGACTGGCACAATACCAGCATCTGCTCTTGCTGCTGCTGGAAACTCACTCTCACCACAAGCTGCTTCTCTTTCATCATCCTTGCACCAACATCAACAAAAGATTGATGAATTGGGTGGGTCAGGGGGGAGTAGTAGTAGGGCCAGCTGGCAAATGGTTGGGGGGAATTTGGGGAGACCCCATTTGGGTGTGGGTGTGGCCACAGCAGCAGGCCTATGGCCCCCTCATGTCAGTGGATTTGGATTTCAAACACCACCAACAACAACAACACCAACAACAACAACATCATCATCTGGTCCATCTAATGCCACCTTAGCCACTGAGAGCTCCAATTACCTTCAGAAAATTGCATTCCCTGGCTTTGACTTGCCTACTTCTGCCACTAACATGATGGGTCACATGAGTTTCACCTCAATTTTGGGTGGAGGTGGGGGTGGTGGGGCCCAGCATATGCCTGGCTTGGAGCTTGGTCTTTCCCAGGATGGCCATATTGGGGTGTTGAATCAACAGGCCTTGAACCAGATTTATCAGCAGATGAATCAGGCTGGTAGAGTGCATCATCATCAGCATCAGCATCATCATCAGCATCATCAGCAGCAACAACACCATCAGCAAACTCCTGCTAAGGATGATTCTCAAGGCTCAGGAGGACAGTAG

Predicted protein sequences of Glyma16g05840

Limit To All Plant Sequences

>Glyma16g05840.1   sequence type=predicted peptide   gene model=Glyma16g05840   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MDPKGSKQQPQQSQEVVPNFLSLPQQQQGNTNNNNMGENKPAEVKDFQIVVAENKEESKKQQQQLAPKRSSNKDRHTKVEGRGRRIRMPALCAARIFQLTRELGHKSDGETIQWLLQQAEPSIIAATGTGTIPASALAAAGNSLSPQAASLSSSLHQHQQKIDELGGSGGSSSRASWQMVGGNLGRPHLGVGVATAAGLWPPHVSGFGFQTPPTTTTPTTTTSSSGPSNATLATESSNYLQKIAFPGFDLPTSATNMMGHMSFTSILGGGGGGGAQHMPGLELGLSQDGHIGVLNQQALNQIYQQMNQAGRVHHHQHQHHHQHHQQQQHHQQTPAKDDSQGSGGQ*

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