Glyma16g04040 - SoyBase

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Report for Sequence Feature Glyma16g04040

Feature Type:	gene_model
Chromosome:	Gm16
Start:	3416235
stop:	3418711
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma16g04040

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G80750	AT	Annotation by Michelle Graham. TAIR10: Ribosomal protein L30/L7 family protein \| chr1:30349052-30350434 FORWARD LENGTH=247	SoyBase	E_val: 1.00E-85	ISS
GO:0001510	GO-bp	Annotation by Michelle Graham. GO Biological Process: RNA methylation	SoyBase	N/A	ISS
GO:0006412	GO-bp	Annotation by Michelle Graham. GO Biological Process: translation	SoyBase	N/A	ISS
GO:0005730	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleolus	SoyBase	N/A	ISS
GO:0005737	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm	SoyBase	N/A	ISS
GO:0005829	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytosol	SoyBase	N/A	ISS
GO:0005840	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: ribosome	SoyBase	N/A	ISS
GO:0015934	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: large ribosomal subunit	SoyBase	N/A	ISS
GO:0022625	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytosolic large ribosomal subunit	SoyBase	N/A	ISS
GO:0003735	GO-mf	Annotation by Michelle Graham. GO Molecular Function: structural constituent of ribosome	SoyBase	N/A	ISS
KOG3184	KOG	60S ribosomal protein L7	JGI		ISS
PTHR11524	Panther	60S RIBOSOMAL PROTEIN L7	JGI		ISS
PF00327	PFAM	Ribosomal protein L30p/L7e	JGI		ISS
PF08079	PFAM	Ribosomal L30 N-terminal domain	JGI		ISS
UniRef100_G7L2C7	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: 60S ribosomal protein L7 n=1 Tax=Medicago truncatula RepID=G7L2C7_MEDTR	SoyBase	E_val: 5.00E-122	ISS
UniRef100_I1MKW5	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1MKW5_SOYBN	SoyBase	E_val: 3.00E-172	ISS

Expression Patterns of Glyma16g04040

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

Glyma16g04040 not represented in the dataset	Glyma16g04040 not represented in the dataset
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 Glyma16g04040

Paralog	Evidence	Comments
Glyma19g29460	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 Glyma16g04040 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.16g036200	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma16g04040

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

Transcripts of Glyma16g04040

Limit To All Plant Sequences

>Glyma16g04040.4   sequence type=transcript   gene model=Glyma16g04040   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
CAAATCGAACATCAATACATACTTTAGGGCTGCAGTTTCGTGCTTTCCCGCCGCCGCTACACTGCCACCGTCTTCCCCGCCGTCTCCGCCAGAGATGGCAGAAGAGGATTCAAAGCCTCTGAACTACATCTCCGAGGTCATTCTCAAGAAGAGGAAGAACACCGAAGCATGGGCTTTAAGGAAAAAAGAACAGTTCCAGCAAAAGAAATACCAATCCATCAAGAAGCCGGAGGATTTCATCCACGAGTATCGCAACAAGGAAGTGGACCTTATAAGAATGAAGCGGAGGGTGAAGAGGAAAGTGCCTGAAGCTAACTCCAACACTCTAATAATCATTCGGATTCAGGGGAAAAAGGACATGCATCCGAGGACGAGGAAGGTGTTGTACAGCTTGGGTTTGAGGAGAAGATTCAGTGCTGTGTTTGTGAAGCCAAGTGAGGGAATAATGGCCAAGCTGCAGAGGGTGGAACCATATGTCACCTATGGATATCCTAATCTTAAAAGCATAAAGGAGCTAATTTACAAAAAAGGACATGCAAGGATGGAACAGCGAAAAGTTCCCTTGACTGATAATAACATTATTGAGCAGGAATTAGGAAAGTTCGGTATTGTATGCATAGAAGACATGGTTCATCAGATTTATAATGCTGGTCCACACTTTAAGGAAGTTGTTAGATTTATGTGGCCCTTTGAGCTCAACAAGCCAGCTGAAGGATTGAAAGGATCAAAAACCTCATTCAAAGAAGATGGAGACACAGGGAACCGTGAGGATCTCATCAACGAACTGATCAATAAAATGAATTAGTGGCTTTTGTAGTATCAAAATTTTGATGATTACTATGTTCGTTGGATGATCCTAGGTGCAATATCTGATTTTTCAAGAAACCAATTTATTACCGAGAGAAACATTGCTACATGTTCTTGTTATAGTAGAGTTTTAGTGTGTATTTATCTTTACAGTCTTCATTTACTTATTGAATTCCATTAGGCATTGGAAGGGAGCGGGGTGGAGAAGAAAGGGACGGGCATGGTGTGCTGTGGGGCTTGAATCCTTGAATTCTCAATATATTTTGTCATGGATGAAATTCTTTTACTAGGTGGAATGGTGGAATGTGATAGTGATATTATCTGAATATATTTGAAGAACAAAATTGGGAGTTATAAGGTTGGGTGGGTGGTAAAAGGTAAAGGGAGGGAAGGAGTGTTTGTTCGATTTTCCT

Coding sequences of Glyma16g04040

Limit To All Plant Sequences

>Glyma16g04040.3   sequence type=CDS   gene model=Glyma16g04040   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCAGAAGAGGATTCAAAGCCTCTGAACTACATCTCCGAGGTCATTCTCAAGAAGAGGAAGAACACCGAAGCATGGGCTTTAAGGAAAAAAGAACAGTTCCAGCAAAAGAAATACCAATCCATCAAGAAGCCGGAGGATTTCATCCACGAGTATCGCAACAAGGAAGTGGACCTTATAAGAATGAAGCGGAGGGTGAAGAGGAAAGTGCCTGAAGCTAACTCCAACACTCTAATAATCATTCGGATTCAGGGGAAAAAGGACATGCATCCGAGGACGAGGAAGGTGTTGTACAGCTTGGGTTTGAGGAGAAGATTCAGTGCTGTGTTTGTGAAGCCAAGTGAGGGAATAATGGCCAAGCTGCAGAGGGTGGAACCATATGTCACCTATGGATATCCTAATCTTAAAAGCATAAAGGAGCTAATTTACAAAAAAGGACATGCAAGGATGGAACAGCGAAAAGTTCCCTTGACTGATAATAACATTATTGAGCAGGAATTAGGAAAGTTCGGTATTGTATGCATAGAAGACATGGTTCATCAGATTTATAATGCTGGTCCACACTTTAAGGAAGTTGTTAGATTTATGTGGCCCTTTGAGCTCAACAAGCCAGCTGAAGGATTGAAAGGATCAAAAACCTCATTCAAAGAAGATGGAGACACAGGGAACCGTGAGGATCTCATCAACGAACTGATCAATAAAATGAATTAG

>Glyma16g04040.4   sequence type=CDS   gene model=Glyma16g04040   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCAGAAGAGGATTCAAAGCCTCTGAACTACATCTCCGAGGTCATTCTCAAGAAGAGGAAGAACACCGAAGCATGGGCTTTAAGGAAAAAAGAACAGTTCCAGCAAAAGAAATACCAATCCATCAAGAAGCCGGAGGATTTCATCCACGAGTATCGCAACAAGGAAGTGGACCTTATAAGAATGAAGCGGAGGGTGAAGAGGAAAGTGCCTGAAGCTAACTCCAACACTCTAATAATCATTCGGATTCAGGGGAAAAAGGACATGCATCCGAGGACGAGGAAGGTGTTGTACAGCTTGGGTTTGAGGAGAAGATTCAGTGCTGTGTTTGTGAAGCCAAGTGAGGGAATAATGGCCAAGCTGCAGAGGGTGGAACCATATGTCACCTATGGATATCCTAATCTTAAAAGCATAAAGGAGCTAATTTACAAAAAAGGACATGCAAGGATGGAACAGCGAAAAGTTCCCTTGACTGATAATAACATTATTGAGCAGGAATTAGGAAAGTTCGGTATTGTATGCATAGAAGACATGGTTCATCAGATTTATAATGCTGGTCCACACTTTAAGGAAGTTGTTAGATTTATGTGGCCCTTTGAGCTCAACAAGCCAGCTGAAGGATTGAAAGGATCAAAAACCTCATTCAAAGAAGATGGAGACACAGGGAACCGTGAGGATCTCATCAACGAACTGATCAATAAAATGAATTAG

Predicted protein sequences of Glyma16g04040

Limit To All Plant Sequences

>Glyma16g04040.3   sequence type=predicted peptide   gene model=Glyma16g04040   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MAEEDSKPLNYISEVILKKRKNTEAWALRKKEQFQQKKYQSIKKPEDFIHEYRNKEVDLIRMKRRVKRKVPEANSNTLIIIRIQGKKDMHPRTRKVLYSLGLRRRFSAVFVKPSEGIMAKLQRVEPYVTYGYPNLKSIKELIYKKGHARMEQRKVPLTDNNIIEQELGKFGIVCIEDMVHQIYNAGPHFKEVVRFMWPFELNKPAEGLKGSKTSFKEDGDTGNREDLINELINKMN*

>Glyma16g04040.4   sequence type=predicted peptide   gene model=Glyma16g04040   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MAEEDSKPLNYISEVILKKRKNTEAWALRKKEQFQQKKYQSIKKPEDFIHEYRNKEVDLIRMKRRVKRKVPEANSNTLIIIRIQGKKDMHPRTRKVLYSLGLRRRFSAVFVKPSEGIMAKLQRVEPYVTYGYPNLKSIKELIYKKGHARMEQRKVPLTDNNIIEQELGKFGIVCIEDMVHQIYNAGPHFKEVVRFMWPFELNKPAEGLKGSKTSFKEDGDTGNREDLINELINKMN*

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