Glyma04g42420 - SoyBase

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Report for Sequence Feature Glyma04g42420

Feature Type:	gene_model
Chromosome:	Gm04
Start:	48186935
stop:	48190297
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g42420

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT5G20240	AT	Annotation by Michelle Graham. TAIR10: K-box region and MADS-box transcription factor family protein \| chr5:6829203-6831208 FORWARD LENGTH=208	SoyBase	E_val: 3.00E-74	ISS
GO:0006355	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent	SoyBase	N/A	ISS
GO:0048481	GO-bp	Annotation by Michelle Graham. GO Biological Process: ovule development	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0005737	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm	SoyBase	N/A	ISS
GO:0003677	GO-mf	Annotation by Michelle Graham. GO Molecular Function: 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:0046983	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein dimerization activity	SoyBase	N/A	ISS
KOG0014	KOG	MADS box transcription factor	JGI		ISS
PTHR11945	Panther	MADS BOX PROTEIN	JGI		ISS
PTHR11945:SF134	Panther	SUBFAMILY NOT NAMED	JGI		ISS
PF00319	PFAM	SRF-type transcription factor (DNA-binding and dimerisation domain)	JGI		ISS
PF01486	PFAM	K-box region	JGI		ISS
UniRef100_I1JZ14	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JZ14_SOYBN	SoyBase	E_val: 7.00E-128	ISS
UniRef100_Q5MAR0	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: MADS box transcription factor PEAM1 n=1 Tax=Pisum sativum RepID=Q5MAR0_PEA	SoyBase	E_val: 1.00E-122	ISS

Expression Patterns of Glyma04g42420

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 Glyma04g42420

Paralog	Evidence	Comments
Glyma06g12380	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 Glyma04g42420 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g245500	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g42420

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

Coding sequences of Glyma04g42420

Limit To All Plant Sequences

>Glyma04g42420.1   sequence type=CDS   gene model=Glyma04g42420   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGGGAGGGGTAAGATTGAGATCAAAAGGATTGAGAACTCAAGCAACAGGCAAGTTACCTACTCAAAGAGGAAGAATGGGATCCTTAAGAAGGCAAAGGAAATTAGTGTTCTATGTGATGCTCAAGTTTCCCTTATCATCTTTGGTGTCTCTGGGAAGATGCATGAGTACATCAGCCCCTCCACTACGTTGATTGACGTCCTGGACAGATACCAAAGAGCCTCTGGGAAGACCCTGTGGGATGCTAAGCATGAGAACCTCAGCAATGAAATTGATAGAATCAAGAAAGAGAATGACAGCATGCAAATTGAGCTCAGGCACTTGAAAGGAGAGGACATCACGTCACTGAATTACAAGGAACTGATGGCTCTAGAGGATGCCCTTGAAAATGGCCTCAGTGGAGTCCGTGAGAAAAAGATGGAAGTGCACAGGATGTTCAAGAGAAATGACAAGATTTTGGAGGAGCAAAATAAGGAACTCAATTTCCTTCTGCAACAACATTTGGCACTAGAAGGTGTGGGAAACATGCATGGACAATGGATTTAA

Predicted protein sequences of Glyma04g42420

Limit To All Plant Sequences

>Glyma04g42420.1   sequence type=predicted peptide   gene model=Glyma04g42420   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MGRGKIEIKRIENSSNRQVTYSKRKNGILKKAKEISVLCDAQVSLIIFGVSGKMHEYISPSTTLIDVLDRYQRASGKTLWDAKHENLSNEIDRIKKENDSMQIELRHLKGEDITSLNYKELMALEDALENGLSGVREKKMEVHRMFKRNDKILEEQNKELNFLLQQHLALEGVGNMHGQWI*

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