Glyma16g05540 - SoyBase

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Report for Sequence Feature Glyma16g05540

Feature Type:	gene_model
Chromosome:	Gm16
Start:	4846372
stop:	4850457
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma16g05540

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT2G33500	AT	Annotation by Michelle Graham. TAIR10: B-box type zinc finger protein with CCT domain \| chr2:14188159-14190046 REVERSE LENGTH=402	SoyBase	E_val: 4.00E-65	ISS
GO:0006355	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent	SoyBase	N/A	ISS
GO:0005622	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: intracellular	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	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:0008270	GO-mf	Annotation by Michelle Graham. GO Molecular Function: zinc ion binding	SoyBase	N/A	ISS
PF06203	PFAM	CCT motif	JGI		ISS
UniRef100_G7KW76	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Zinc finger protein CONSTANS-like protein n=4 Tax=Medicago truncatula RepID=G7KW76_MEDTR	SoyBase	E_val: 9.00E-152	ISS
UniRef100_I1MLC5	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1MLC5_SOYBN	SoyBase	E_val: 0	ISS

Proteins Associated with Glyma16g05540

Locus	Gene Symbol	Protein Name
	COL13a	Constans-like 13a

Expression Patterns of Glyma16g05540

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 Glyma16g05540

Paralog	Evidence	Comments
Glyma19g27240	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 Glyma16g05540 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.16g050900	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma16g05540

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

Coding sequences of Glyma16g05540

Limit To All Plant Sequences

>Glyma16g05540.1   sequence type=CDS   gene model=Glyma16g05540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTTGCCATGCGATTACTGCCATTCCAAACCCGCCATACTCTTCTGCAGACCAGATTCCGCTAAACTATGCTTGCTATGCGACCAGCACGTGCACGCCGCCAACGCCCTCTCCCTCAAGCACGTGCGCTTCCAGATTTGCGACTCCTGCAAGACCGACACCGCTGTCCTCCGCTGCTCCACCGACAACCTCGTCCTCTGCCACCACTGCGATGTGGAAACCCACGGTGCTGCCGCTTCCTCCCACCACCAACGTCACCGCCTCCACGGCCTCTCCGGCTGCCCCTCCGTCACGGAGATCGTCTCCGCGCTGTGCCTCGATTTCCGGGCCCAGGATCCCGTGGTCCCCACCGCCGCCTCCGGCGGTCGCGATGAGGTGTACGAGCAGGTGCTGGAAATCGCGCGGCAGAGGAACGACGACCTCGGCGCCGAACAACTCAAGTTCGACGAATCCCCCATAAACGACGTCGTTGTTGTTGACGAGATGCTGATGCAGCAAACGCCGTTCACGTCTTTGCTTATGTTGCCAAATTCCGAATCTGAATTCGACTCCCGAAAAAGTAACGATAACAACGGTTACGGAACCGAGGCAGGGGATCTTCTCTGGAATTATAACCCCGCGTATCAGCCTCCTCAGGTGTGGGATTTTCAGTTACAAAAATCAAGAGATTGCCATGAACCAAGAGTTGTAACATTTGATGGTCTAGAAGTTCCAAAATTATTTCAGGATGAGCACAATATGAAGTACTCAACAATTGGTGATGACATTGATATTCTATCAAGAAATAATCAATCGGATCAGTCATCATCAAGCCATGCAAAGAAGAAAGAAGAGAACAACAAAAAAGCTAAAGGTGGGTTATCATCAGAGTCCAAACTGTTTGAATCCATACCGTACAATGGCACCAACAATGTCGTAGTCATGGAGCATCTTGTTGGTGGGAATGAAAATGTTGGCACCTTAACAGCCAGGGTTAGTTTGGAAGAGTTGGCTAAGAATAGAGGGGATGCCATGTTGCGTTACAAGGAGAAGAAGAAAACTCGAAGGTACGATAAGCACATTCGCTATGAATCAAGGAAGGCCAGGGCTGATACTAGAAAAAGGGTGAGAGGGAGATTTGTGAAGGCAAGTGATGTTCAAGCGTGA

Predicted protein sequences of Glyma16g05540

Limit To All Plant Sequences

>Glyma16g05540.1   sequence type=predicted peptide   gene model=Glyma16g05540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MLPCDYCHSKPAILFCRPDSAKLCLLCDQHVHAANALSLKHVRFQICDSCKTDTAVLRCSTDNLVLCHHCDVETHGAAASSHHQRHRLHGLSGCPSVTEIVSALCLDFRAQDPVVPTAASGGRDEVYEQVLEIARQRNDDLGAEQLKFDESPINDVVVVDEMLMQQTPFTSLLMLPNSESEFDSRKSNDNNGYGTEAGDLLWNYNPAYQPPQVWDFQLQKSRDCHEPRVVTFDGLEVPKLFQDEHNMKYSTIGDDIDILSRNNQSDQSSSSHAKKKEENNKKAKGGLSSESKLFESIPYNGTNNVVVMEHLVGGNENVGTLTARVSLEELAKNRGDAMLRYKEKKKTRRYDKHIRYESRKARADTRKRVRGRFVKASDVQA*

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