Glyma04g03030 - SoyBase

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Report for Sequence Feature Glyma04g03030

Feature Type:	gene_model
Chromosome:	Gm04
Start:	2201444
stop:	2208758
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g03030

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G75510	AT	Annotation by Michelle Graham. TAIR10: Transcription initiation factor IIF, beta subunit \| chr1:28347254-28348629 REVERSE LENGTH=261	SoyBase	E_val: 2.00E-122	ISS
GO:0000394	GO-bp	Annotation by Michelle Graham. GO Biological Process: RNA splicing, via endonucleolytic cleavage and ligation	SoyBase	N/A	ISS
GO:0006366	GO-bp	Annotation by Michelle Graham. GO Biological Process: transcription from RNA polymerase II promoter	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:0005674	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: transcription factor TFIIF complex	SoyBase	N/A	ISS
GO:0005739	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: mitochondrion	SoyBase	N/A	ISS
GO:0003824	GO-mf	Annotation by Michelle Graham. GO Molecular Function: catalytic activity	SoyBase	N/A	ISS
GO:0005524	GO-mf	Annotation by Michelle Graham. GO Molecular Function: ATP binding	SoyBase	N/A	ISS
GO:0008026	GO-mf	Annotation by Michelle Graham. GO Molecular Function: ATP-dependent helicase activity	SoyBase	N/A	ISS
KOG2905	KOG	Transcription initiation factor IIF, small subunit (RAP30)	JGI		ISS
PTHR10445	Panther	TRANSCRIPTION INITIATION FACTOR IIF (TFIIF), BETA SUBUNIT-RELATED	JGI		ISS
PF02270	PFAM	Transcription initiation factor IIF, beta subunit	JGI		ISS
UniRef100_C6TL77	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=C6TL77_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_E6NU66	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: JHL18I08.10 protein n=1 Tax=Jatropha curcas RepID=E6NU66_9ROSI	SoyBase	E_val: 2.00E-154	ISS

Expression Patterns of Glyma04g03030

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 Glyma04g03030

Paralog	Evidence	Comments
Glyma06g03070	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 Glyma04g03030 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g027700	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g03030

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

Transcripts of Glyma04g03030

Limit To All Plant Sequences

>Glyma04g03030.2   sequence type=transcript   gene model=Glyma04g03030   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GTTTTGTTCGGCCCAAGAATAGGTTACAATAATAACGAGGTCGAGGTCAAATATAATTGACTTGGGGGCGGTGTCGGTTTTCAGACACGAGTGGCTTTTGTTACTGCGCTGCGTGCAGAAACAGAGAAGGAGAGAAGAATGGACGAGGAGAATGGTTACAGTGGGAGTAGCAGCTCAAACTTGGAGACTACAAAAGCAGAGAGATCTGTGTGGCTGATGAAGTGCCCTTTGGTGGTGGCTAAGTCATGGCAGGCTCATCCTCCTTCTCAACCTCTCGCCAAGGTTGTGCTCTCCCTTGATCCTCTCCACCCTGAAGAAGACGATCCCTCTGCAGTCCAGTTTACAATGGAGATGGCTGGCTCCGAAGCTGTGAATATGCCAAAAACTTATTCATTGAATATGTTTAAAGACTTTGTTCCTATGTGTGTCTTCTCCGAGACTAGCCAAGGTGGCAAGGTTGCAATGGAAGGGAAAGTAGAACATAAGTTTGATATGAAGCCCCATGGTGAAAACATTGAAGAGTATGGTAAATTGTGTCGTGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGGTTATTGATAATGACCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCTAAGGACAAGAAGAAGACACAGCCGGTTAAGCAATCTGATACAAAGAGAACAAGAAGAGATCGGGGAGAGCTGGAGGATATAATGTTCAAGCTATTTGAAAGACAGCCTAATTGGGCCTTGAAACAGCTTGTCCAAGAGACTGATCAACCTGCAGTATGCTTTTCTGCTCTGCCTTTTTTTTTTGGTGTTCTTTTTCACCTGAGTCTAGAGAAATGCTAGCAACACACT

Coding sequences of Glyma04g03030

Limit To All Plant Sequences

>Glyma04g03030.1   sequence type=CDS   gene model=Glyma04g03030   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGACGAGGAGAATGGTTACAGTGGGAGTAGCAGCTCAAACTTGGAGACTACAAAAGCAGAGAGATCTGTGTGGCTGATGAAGTGCCCTTTGGTGGTGGCTAAGTCATGGCAGGCTCATCCTCCTTCTCAACCTCTCGCCAAGGTTGTGCTCTCCCTTGATCCTCTCCACCCTGAAGAAGACGATCCCTCTGCAGTCCAGTTTACAATGGAGATGGCTGGCTCCGAAGCTGTGAATATGCCAAAAACTTATTCATTGAATATGTTTAAAGACTTTGTTCCTATGTGTGTCTTCTCCGAGACTAGCCAAGGTGGCAAGGTTGCAATGGAAGGGAAAGTAGAACATAAGTTTGATATGAAGCCCCATGGTGAAAACATTGAAGAGTATGGTAAATTGTGTCGTGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGGTTATTGATAATGACCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCTAAGGACAAGAAGAAGACACAGCCGGTTAAGCAATCTGATACAAAGAGAACAAGAAGAGATCGGGGAGAGCTGGAGGATATAATGTTCAAGCTATTTGAAAGACAGCCTAATTGGGCCTTGAAACAGCTTGTCCAAGAGACTGATCAACCTGCACAATTCTTGAAAGAGATTCTGAACGAACTTTGTGTTTACAATAAAAGAGGTGCCAATCAAGGAACCTACGAGCTGAAGCCTGAGTACAAGAAATCTGTTGAAGATACGAGTGCTGAATAA

>Glyma04g03030.2   sequence type=CDS   gene model=Glyma04g03030   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGACGAGGAGAATGGTTACAGTGGGAGTAGCAGCTCAAACTTGGAGACTACAAAAGCAGAGAGATCTGTGTGGCTGATGAAGTGCCCTTTGGTGGTGGCTAAGTCATGGCAGGCTCATCCTCCTTCTCAACCTCTCGCCAAGGTTGTGCTCTCCCTTGATCCTCTCCACCCTGAAGAAGACGATCCCTCTGCAGTCCAGTTTACAATGGAGATGGCTGGCTCCGAAGCTGTGAATATGCCAAAAACTTATTCATTGAATATGTTTAAAGACTTTGTTCCTATGTGTGTCTTCTCCGAGACTAGCCAAGGTGGCAAGGTTGCAATGGAAGGGAAAGTAGAACATAAGTTTGATATGAAGCCCCATGGTGAAAACATTGAAGAGTATGGTAAATTGTGTCGTGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGGTTATTGATAATGACCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCTAAGGACAAGAAGAAGACACAGCCGGTTAAGCAATCTGATACAAAGAGAACAAGAAGAGATCGGGGAGAGCTGGAGGATATAATGTTCAAGCTATTTGAAAGACAGCCTAATTGGGCCTTGAAACAGCTTGTCCAAGAGACTGATCAACCTGCAGTATGCTTTTCTGCTCTGCCTTTTTTTTTTGGTGTTCTTTTTCACCTGAGTCTAGAGAAATGCTAG

Predicted protein sequences of Glyma04g03030

Limit To All Plant Sequences

>Glyma04g03030.1   sequence type=predicted peptide   gene model=Glyma04g03030   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MDEENGYSGSSSSNLETTKAERSVWLMKCPLVVAKSWQAHPPSQPLAKVVLSLDPLHPEEDDPSAVQFTMEMAGSEAVNMPKTYSLNMFKDFVPMCVFSETSQGGKVAMEGKVEHKFDMKPHGENIEEYGKLCRERTNKSMIKNRQIQVIDNDRGVLMRPMPGMIGLVSSNSKDKKKTQPVKQSDTKRTRRDRGELEDIMFKLFERQPNWALKQLVQETDQPAQFLKEILNELCVYNKRGANQGTYELKPEYKKSVEDTSAE*

>Glyma04g03030.2   sequence type=predicted peptide   gene model=Glyma04g03030   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MDEENGYSGSSSSNLETTKAERSVWLMKCPLVVAKSWQAHPPSQPLAKVVLSLDPLHPEEDDPSAVQFTMEMAGSEAVNMPKTYSLNMFKDFVPMCVFSETSQGGKVAMEGKVEHKFDMKPHGENIEEYGKLCRERTNKSMIKNRQIQVIDNDRGVLMRPMPGMIGLVSSNSKDKKKTQPVKQSDTKRTRRDRGELEDIMFKLFERQPNWALKQLVQETDQPAVCFSALPFFFGVLFHLSLEKC*

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