Glyma19g28780 - SoyBase

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Report for Sequence Feature Glyma19g28780

Feature Type:	gene_model
Chromosome:	Gm19
Start:	36366963
stop:	36371834
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma19g28780

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G55520	AT	Annotation by Michelle Graham. TAIR10: TATA binding protein 2 \| chr1:20726150-20727483 REVERSE LENGTH=200	SoyBase	E_val: 6.00E-137	ISS
GO:0006352	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA-dependent transcription, initiation	SoyBase	N/A	ISS
GO:0006355	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent	SoyBase	N/A	ISS
GO:0006367	GO-bp	Annotation by Michelle Graham. GO Biological Process: transcription initiation from RNA polymerase II promoter	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0003677	GO-mf	Annotation by Michelle Graham. GO Molecular Function: DNA binding	SoyBase	N/A	ISS
GO:0005515	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein binding	SoyBase	N/A	ISS
GO:0017025	GO-mf	Annotation by Michelle Graham. GO Molecular Function: TBP-class protein binding	SoyBase	N/A	ISS
KOG3302	KOG	TATA-box binding protein (TBP), component of TFIID and TFIIIB	JGI		ISS
PTHR10126	Panther	TATA-BOX BINDING PROTEIN	JGI		ISS
PF00352	PFAM	Transcription factor TFIID (or TATA-binding protein, TBP)	JGI		ISS
UniRef100_I1N880	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1N880_SOYBN	SoyBase	E_val: 2.00E-144	ISS
UniRef100_P26357	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: TATA-box-binding protein n=1 Tax=Solanum tuberosum RepID=TBP_SOLTU	SoyBase	E_val: 1.00E-140	ISS

Expression Patterns of Glyma19g28780

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 Glyma19g28780

Paralog	Evidence	Comments
Glyma09g41330	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.
Glyma18g44460	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 Glyma19g28780 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.19g111200	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma19g28780

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

Transcripts of Glyma19g28780

Limit To All Plant Sequences

>Glyma19g28780.2   sequence type=transcript   gene model=Glyma19g28780   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
AATCTATCTTACTATATGTTGATTCTTACCATCTTCTGTTCTCTATATATCTCTATTTCTTTTCTCTCTCTATAAATAAGCAACCTTACAACTCTTCTCAATCCCATCAAATCGAACCCTTTTTAAACGCTCTAATACAAATTTCTGGCACCAAATCCTTCCCACTCTCCTCAATTCCATTCATTTCAACTCAACAATTTCTCAGATCCGTCAAACAAAATAAAAAAGATCGAAAACCCTAGTTCTATAAATATATAAAGGAAAAAAGCTTTTTGCTGGTTTTGAGGCATAGCATTAAATCGGATTTTGATTATTCATGGCTGAACAAGCATTGGAAGGTAGCCAACCTGTGGATTTAACAAAGCACCCTTCTGGGATTGTGCCTACCCTTCAAAATATTGTGTCAACGGTCAATTTGGACTGTAAATTGGAGCTTAAATCAATTGCACTTCAAGCTCGAAATGCAGAATACAATCCCAAGCGTTTTGCTGCTGTTATTATGAGGATCAGGGAACCAAAAACTACTGCACTCATTTTTGCATCTGGCAAGATGGTCTGCACTGGAGCTAAGAGTGAGCAACAGTCTAAATTGGCGGCAAGGAAGTATGCTAGAATTATCCAAAAGCTTGGTTTCCCAGCTAAATTTAAGGATTTTAAGATTCAGAACATTGTTGGCTCTTGTGATGTCAAGTTCCCCATTCGACTTGAGGGTCTTGCCTATTCCCATAGTGCTTTCTCAAGTGTGTAAACTTTGGAAAAAAGGGATTTAACTAGTACAAATGGAAAGCCATTCTTGATTTCCATGACAGCCAAACAACCACAAATCGGTTTTTATTAATTTTCATTAAGCAGAGGCTGTGTTAACCCATGATATCCATTGCCAACTGCACTTTTGTAGATACTTATATGTTCTAAAAGTGTTGGAAGTTTTTATGATTATAACCGGAAGAACTGAGTGGGGAAGTATTTTTTACCATGGTGCTTGTGTTATAAAGAAAGTGTAGATGATGGAAAGAGCCATTTTCAGTTGTGTTTCTGCATGTGCAGTTGGTTTCCTGGCTTCTTTCTACATACTAAATGTTTAAGTAATGATTAACATATGTTAAACTTGTTTGTTCTTGTTGGTAGTATGAACCAGAGCTGTTTCCCGGACTAATCTATCGCATGAAGCAACCCAAGATAGTCTTGCTTATATTTGTCTCCGGAAAAATTGTTCTGACAGGAGCCAAGGTTAGAGATGAGACTTACACAGCTTTTGAGAACATATATCCAGTGCTTACTGAGTTCAGGAAAAACCAACAATGATTACTACTGTCAAGAGAGCAGGAGCAAGACTTGATTGAACTGTAAATATGAAGACCAGAGATAGAAATATCTGTAATCAGGATTGAGTTTTAATAAGACACCTGTGTTTGTTCTGTCTTTTTCTCTCTTTTAAGAAAAGGGATCCTGCTTTAGTAAAGTGGAAGAAAAAAAAAACCGTGTATTGAATTTGACTGTAGAAAAAGAGATATATAAGAGGCAGAATGAAAAGAAAAAGTGGAAGCTTGTGCAAATCATGAATATCTTTCACTGAAGTGGAAACTATTTTTGGTTCATTTCAACTATGAGCAACTTTGTTTTTTAGTTAATCAAGTTCTAAAGCTTAAGGATAGTGTCTTCGTATACTGTTCAAAACAGCAACGACGTGTTTAATACACTATGTTTTATGAAGCTAGCAACATCTAGGTATTTTAATTTCATATTGGAATTTGAAGACGTTATGATAAATAAAACACTACATTTGAT

Coding sequences of Glyma19g28780

Limit To All Plant Sequences

>Glyma19g28780.1   sequence type=CDS   gene model=Glyma19g28780   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCTGAACAAGCATTGGAAGGTAGCCAACCTGTGGATTTAACAAAGCACCCTTCTGGGATTGTGCCTACCCTTCAAAATATTGTGTCAACGGTCAATTTGGACTGTAAATTGGAGCTTAAATCAATTGCACTTCAAGCTCGAAATGCAGAATACAATCCCAAGCGTTTTGCTGCTGTTATTATGAGGATCAGGGAACCAAAAACTACTGCACTCATTTTTGCATCTGGCAAGATGGTCTGCACTGGAGCTAAGAGTGAGCAACAGTCTAAATTGGCGGCAAGGAAGTATGCTAGAATTATCCAAAAGCTTGGTTTCCCAGCTAAATTTAAGGATTTTAAGATTCAGAACATTGTTGGCTCTTGTGATGTCAAGTTCCCCATTCGACTTGAGGGTCTTGCCTATTCCCATAGTGCTTTCTCAAGTTATGAACCAGAGCTGTTTCCCGGACTAATCTATCGCATGAAGCAACCCAAGATAGTCTTGCTTATATTTGTCTCCGGAAAAATTGTTCTGACAGGAGCCAAGGTTAGAGATGAGACTTACACAGCTTTTGAGAACATATATCCAGTGCTTACTGAGTTCAGGAAAAACCAACAATGA

>Glyma19g28780.2   sequence type=CDS   gene model=Glyma19g28780   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCTGAACAAGCATTGGAAGGTAGCCAACCTGTGGATTTAACAAAGCACCCTTCTGGGATTGTGCCTACCCTTCAAAATATTGTGTCAACGGTCAATTTGGACTGTAAATTGGAGCTTAAATCAATTGCACTTCAAGCTCGAAATGCAGAATACAATCCCAAGCGTTTTGCTGCTGTTATTATGAGGATCAGGGAACCAAAAACTACTGCACTCATTTTTGCATCTGGCAAGATGGTCTGCACTGGAGCTAAGAGTGAGCAACAGTCTAAATTGGCGGCAAGGAAGTATGCTAGAATTATCCAAAAGCTTGGTTTCCCAGCTAAATTTAAGGATTTTAAGATTCAGAACATTGTTGGCTCTTGTGATGTCAAGTTCCCCATTCGACTTGAGGGTCTTGCCTATTCCCATAGTGCTTTCTCAAGTGTGTAA

Predicted protein sequences of Glyma19g28780

Limit To All Plant Sequences

>Glyma19g28780.1   sequence type=predicted peptide   gene model=Glyma19g28780   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MAEQALEGSQPVDLTKHPSGIVPTLQNIVSTVNLDCKLELKSIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKSEQQSKLAARKYARIIQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHSAFSSYEPELFPGLIYRMKQPKIVLLIFVSGKIVLTGAKVRDETYTAFENIYPVLTEFRKNQQ*

>Glyma19g28780.2   sequence type=predicted peptide   gene model=Glyma19g28780   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MAEQALEGSQPVDLTKHPSGIVPTLQNIVSTVNLDCKLELKSIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKSEQQSKLAARKYARIIQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHSAFSSV*

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