Glyma16g01780 - SoyBase

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Report for Sequence Feature Glyma16g01780

Feature Type:	gene_model
Chromosome:	Gm16
Start:	1326397
stop:	1329441
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma16g01780

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G54770	AT	Annotation by Michelle Graham. TAIR10: RNA-binding (RRM/RBD/RNP motifs) family protein \| chr3:20273863-20275827 REVERSE LENGTH=261	SoyBase	E_val: 1.00E-53	ISS
GO:0000398	GO-bp	Annotation by Michelle Graham. GO Biological Process: mRNA splicing, via spliceosome	SoyBase	N/A	ISS
GO:0009414	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to water deprivation	SoyBase	N/A	ISS
GO:0009651	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to salt stress	SoyBase	N/A	ISS
GO:0009737	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to abscisic acid stimulus	SoyBase	N/A	ISS
GO:0010029	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of seed germination	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: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
KOG0149	KOG	Predicted RNA-binding protein SEB4 (RRM superfamily)	JGI		ISS
PTHR24011	Panther	FAMILY NOT NAMED	JGI		ISS
PTHR24011:SF26	Panther	SUBFAMILY NOT NAMED	JGI		ISS
PF00076	PFAM	RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)	JGI		ISS
UniRef100_B9SD37	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: RNA-binding region-containing protein, putative n=2 Tax=core eudicotyledons RepID=B9SD37_RICCO	SoyBase	E_val: 5.00E-84	ISS
UniRef100_I1MK88	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1MK88_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma16g01780

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 Glyma16g01780

Paralog	Evidence	Comments
Glyma07g05250	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 Glyma16g01780 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.16g015300	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma16g01780

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

Coding sequences of Glyma16g01780

Limit To All Plant Sequences

>Glyma16g01780.1   sequence type=CDS   gene model=Glyma16g01780   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGACTATGATGAGCAGCAGCAACAACAACGTTGGAGAATTTGGAGACACCACTCTGACCAAGGTTTTTGTTGGGGGCTTAGCTTGGGAGACTCCGAAGGATGCCCTTAAAGACCACTTTGAGAAGTATGGTCAGATCCTTGAAGCTGTCATCATTTCCGATAAGCACACTGGCAAATCCAAAGGCTATGGCTTTGTGACTTTCAAGGAGGCTGAGGCTGCCAAGAAGGCTTGTGAGAATTCAACAACTCTCATTATCAATGGCCGTCGAGCGAATTGCAATCTTGCTTTCCTAGGTGCTCGTCGCCCAAGGTCTTCTTCCAATGTTTCACCTCCTCCACCGCAAGCACAAGGGGGATCCAACGGTGGAATAGTGAAGAATGTTAACAATGCATCAGGTCCACCACCAGCCATTAATCACGTGCAGCCATATTATTATCCAGTGAGGACAACTGCTCTGCCATTCCATAATCACACTCTTCCTTTCTATGGGTATGCGCCTACCTACATTGTTACTGACGTAAACTACAATTACAATCAGAATCAGAAACTGTGCTATGGTAGCGGTGGGGCCTACATGAATGGGCAGCATGTGTACCCGAGGCAGGCTATTGTGGGCGGCAACACACTGATGCCAATGTATCCTCTCTATCAGTATCACCATCCAACGGAGACCATTGGCGTGCCAGCTCATCACAACTTTTATCAAACGGCACCGTGGGTCCCAATGACCATCATGTCCAAGCCATCGTCTATCGTTCCTCACACAGGTACAGTTGGCACAGGTGAGTGTTTTAAAAGGGTTGTCTGA

Predicted protein sequences of Glyma16g01780

Limit To All Plant Sequences

>Glyma16g01780.1   sequence type=predicted peptide   gene model=Glyma16g01780   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MTMMSSSNNNVGEFGDTTLTKVFVGGLAWETPKDALKDHFEKYGQILEAVIISDKHTGKSKGYGFVTFKEAEAAKKACENSTTLIINGRRANCNLAFLGARRPRSSSNVSPPPPQAQGGSNGGIVKNVNNASGPPPAINHVQPYYYPVRTTALPFHNHTLPFYGYAPTYIVTDVNYNYNQNQKLCYGSGGAYMNGQHVYPRQAIVGGNTLMPMYPLYQYHHPTETIGVPAHHNFYQTAPWVPMTIMSKPSSIVPHTGTVGTGECFKRVV*

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