Glyma02g43540 - SoyBase

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Integrating Genetics and Genomics to Advance Soybean Research

Report for Sequence Feature Glyma02g43540

Feature Type:	gene_model
Chromosome:	Gm02
Start:	48295927
stop:	48306269
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma02g43540

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT2G32950	AT	Annotation by Michelle Graham. TAIR10: Transducin/WD40 repeat-like superfamily protein \| chr2:13978000-13983282 FORWARD LENGTH=675	SoyBase	E_val: 0	ISS
GO:0006281	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA repair	SoyBase	N/A	ISS
GO:0009640	GO-bp	Annotation by Michelle Graham. GO Biological Process: photomorphogenesis	SoyBase	N/A	ISS
GO:0009641	GO-bp	Annotation by Michelle Graham. GO Biological Process: shade avoidance	SoyBase	N/A	ISS
GO:0009647	GO-bp	Annotation by Michelle Graham. GO Biological Process: skotomorphogenesis	SoyBase	N/A	ISS
GO:0009649	GO-bp	Annotation by Michelle Graham. GO Biological Process: entrainment of circadian clock	SoyBase	N/A	ISS
GO:0009963	GO-bp	Annotation by Michelle Graham. GO Biological Process: positive regulation of flavonoid biosynthetic process	SoyBase	N/A	ISS
GO:0010100	GO-bp	Annotation by Michelle Graham. GO Biological Process: negative regulation of photomorphogenesis	SoyBase	N/A	ISS
GO:0010119	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of stomatal movement	SoyBase	N/A	ISS
GO:0010224	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to UV-B	SoyBase	N/A	ISS
GO:0046283	GO-bp	Annotation by Michelle Graham. GO Biological Process: anthocyanin-containing compound metabolic process	SoyBase	N/A	ISS
GO:0048573	GO-bp	Annotation by Michelle Graham. GO Biological Process: photoperiodism, flowering	SoyBase	N/A	ISS
GO:0048608	GO-bp	Annotation by Michelle Graham. GO Biological Process: reproductive structure development	SoyBase	N/A	ISS
GO:0000152	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nuclear ubiquitin ligase complex	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0080008	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: CUL4-RING ubiquitin ligase complex	SoyBase	N/A	ISS
GO:0004842	GO-mf	Annotation by Michelle Graham. GO Molecular Function: ubiquitin-protein ligase activity	SoyBase	N/A	ISS
GO:0005515	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein binding	SoyBase	N/A	ISS
GO:0008270	GO-mf	Annotation by Michelle Graham. GO Molecular Function: zinc ion binding	SoyBase	N/A	ISS
KOG0265	KOG	U5 snRNP-specific protein-like factor and related proteins	JGI		ISS
PTHR22847	Panther	WD40 REPEAT PROTEIN	JGI		ISS
PTHR22847:SF121	Panther	SUBFAMILY NOT NAMED	JGI		ISS
PF00097	PFAM	Zinc finger, C3HC4 type (RING finger)	JGI		ISS
PF00400	PFAM	WD domain, G-beta repeat	JGI		ISS
UniRef100_I1JII2	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=2 Tax=Glycine max RepID=I1JII2_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_Q9M3Y1	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Constitutively photomorphogenic 1 protein n=1 Tax=Pisum sativum RepID=Q9M3Y1_PEA	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma02g43540

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 Glyma02g43540

Paralog	Evidence	Comments
Glyma14g05430	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 Glyma02g43540 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.02g267800	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma02g43540

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

Transcripts of Glyma02g43540

Limit To All Plant Sequences

>Glyma02g43540.2   sequence type=transcript   gene model=Glyma02g43540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ACGCTCTCTCCCTTCTCTCTTTCTCTCTCCAAAACCCCAATTCCGAAGCAAAAACTACCTTCACATCCACAAACCACACCTCCGCCATAAATAAAAGTAACCTCCCTCATGGAAGAGCTCTCAGCGGGGCCTCTCGTCCCCGCCGTCGTCAAACCTGAACCGTCCAAAGGCGCCTCCGCCGCTGCCTCCGGCGGCACGTTCCCGGCCTCCACGTCGGAGCCGGACAAGGACTTCCTCTGTCCGATTTGCATGCAGATCATCAAGGACCCGTTCCTCACCGCGTGCGGCCACAGCTTCTGCTACATGTGCATCATCACGCACCTCCGCAACAAGAGCGATTGCCCTTGCTGCGGCGACTACCTCACCAACACCAACCTCTTCCCTAACTTGTTGCTCGACAAGCTTATTGTTATACGGTTTCTGTACCACATTTGTAGCTACTGAAGAAGACTTCTGCGCGTCAAATATCAAAAACCGCTTCACCTGTCGAACATTTTCGGCAGGTATTGCAAAAGGGTTCTGATGTGTCAATTAAGGAGCTAGACACCCTTTTGTCACTTCTTGCCGAGAAGAAAAGAAAAATGGAACAAGAAGAAGCTGAGAGAAATATGCAAATATTGTTAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAGGTACAAACTGATCTCCACTTTATAAAAGAGGACATAAATGCTGTGGAGAAACATAGAATGGAATTGTATCGTGCACGGGACAGGTACTCTGTAAAATTGCAGATGCTTGACGGTTCTGGGGGAAGAAAATCATGGCATTCATCAATGGACAAGAACAGCAGTGGCCTTTTATCTAGTCCTCTAAATCTTCGAGGAGGGTTGTCATCAGGGAGCCATACTAAGAAAAATGATGGAAAGTCTCATATTAGCTCTCATGGGCATGGAATTCAGAGAAGGAATGTCATCACTGGATCCGATTCACAATATATAAATCAATCGGGTCTTGCTCTAGTTAGAAAGAAGAGGGTGCATACACAGTTCAATGATCTACAAGAATGTTACCTACAAAAGCGACGGCATGCAGCTGATAGGTCCCATAGCCAACAAGAAAGAGATATAAGTCTCATAAGTCGAGAAGGTTATACTGCTGGTCTTGAAGATTTTCAGTCAGTCTTGACAACTTTCACACGCTACAGCCGATTGAGAGTCATTGCGGAACTAAGACATGGGGATATATTTCATTCAGCAAATATAGTGTCAAGCATAGAGTTTGACCGCGATGATGATTTGTTTGCTACTGCTGGAGTTTCGCGGCGCATCAAAGTTTTTGACTTTTCTGCTGTTGTGAATGAACCTACAGATGCTCATTGTCCTGTTGTGGAGATGTCTACACGTTCAAAACTTAGTTGCTTGAGTTGGAATAAATTTGCTAAGAATCAAATAGCTAGTAGTGATTATGAAGGAATTGTGACTGTTTGGGATGTAACCACTCGGAAGAGTTTAATGGAATATGAAGAGCATGAAAAGCGTGCATGGAGTGTAGACTTTTCAAGAACAGATCCCTCTATGCTTGTATCTGGTAGCGATGACTGTAAGGTCAAAATTTGGTGCACTAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGTTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAGTTGGGTCAGCAGACCATCATATCCATTATTATGATTTGAGAAATATTAGCCGTCCAGTCCATGTTTTCAGTGGGCACAGGAAGGCTGTTTCATACGTGAAATTTCTGTCTAATGATGAACTTGCTTCTGCATCAACAGATAGTACACTGCGATTATGGGATGTGAAGGAAAACTTACCAGTTCGTACTTTCAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACAGTAAGCAGTGAATATATTGCGTGTGGCAGTGAAACAAATGAAGTCTTTGTTTACCACAAGGAAATCTCGAGACCTTTGACTTCGCACAGATTTGGGTCCCCTGATATGGATGACGCTGAAGATGAGGCTGGATCATATTTCATCAGCGCTGTTTGCTGGAAGAGTGATCGCCCCACTATTCTAACAGCAAATAGTCAAGGCACCATCAAAGTGCTGGTGCTTGCAGCTTGAACACGAGAAAAAAAATGAAATAGAATGTGGAATTGGTATTATCTTTTCCCATATGCTATGATTGATTGTATCATTTATTAAATTGTACATAGTATTCGAGTGTATATGGCAGGCGTTAGGGATCTTAATGAAATATTAGTCGAGTGCTTAAACCTTTATCAATAAACCAATTAAGGGACTCAACTTCAATTTTTGTCAATTGAGGACCTCAAATTTATTAAATTTTGTATTAATAAATGCTCAGGAGACAAAAATAAAATCGAATTTGGC

Coding sequences of Glyma02g43540

Limit To All Plant Sequences

>Glyma02g43540.1   sequence type=CDS   gene model=Glyma02g43540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAAGAGCTCTCAGCGGGGCCTCTCGTCCCCGCCGTCGTCAAACCTGAACCGTCCAAAGGCGCCTCCGCCGCTGCCTCCGGCGGCACGTTCCCGGCCTCCACGTCGGAGCCGGACAAGGACTTCCTCTGTCCGATTTGCATGCAGATCATCAAGGACCCGTTCCTCACCGCGTGCGGCCACAGCTTCTGCTACATGTGCATCATCACGCACCTCCGCAACAAGAGCGATTGCCCTTGCTGCGGCGACTACCTCACCAACACCAACCTCTTCCCTAACTTGTTGCTCGACAAGCTACTGAAGAAGACTTCTGCGCGTCAAATATCAAAAACCGCTTCACCTGTCGAACATTTTCGGCAGGTATTGCAAAAGGGTTCTGATGTGTCAATTAAGGAGCTAGACACCCTTTTGTCACTTCTTGCCGAGAAGAAAAGAAAAATGGAACAAGAAGAAGCTGAGAGAAATATGCAAATATTGTTAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAGGTACAAACTGATCTCCACTTTATAAAAGAGGACATAAATGCTGTGGAGAAACATAGAATGGAATTGTATCGTGCACGGGACAGGTACTCTGTAAAATTGCAGATGCTTGACGGTTCTGGGGGAAGAAAATCATGGCATTCATCAATGGACAAGAACAGCAGTGGCCTTTTATCTAGTCCTCTAAATCTTCGAGGAGGGTTGTCATCAGGGAGCCATACTAAGAAAAATGATGGAAAGTCTCATATTAGCTCTCATGGGCATGGAATTCAGAGAAGGAATGTCATCACTGGATCCGATTCACAATATATAAATCAATCGGGTCTTGCTCTAGTTAGAAAGAAGAGGGTGCATACACAGTTCAATGATCTACAAGAATGTTACCTACAAAAGCGACGGCATGCAGCTGATAGGTCCCATAGCCAACAAGAAAGAGATATAAGTCTCATAAGTCGAGAAGGTTATACTGCTGGTCTTGAAGATTTTCAGTCAGTCTTGACAACTTTCACACGCTACAGCCGATTGAGAGTCATTGCGGAACTAAGACATGGGGATATATTTCATTCAGCAAATATAGTGTCAAGCATAGAGTTTGACCGCGATGATGATTTGTTTGCTACTGCTGGAGTTTCGCGGCGCATCAAAGTTTTTGACTTTTCTGCTGTTGTGAATGAACCTACAGATGCTCATTGTCCTGTTGTGGAGATGTCTACACGTTCAAAACTTAGTTGCTTGAGTTGGAATAAATTTGCTAAGAATCAAATAGCTAGTAGTGATTATGAAGGAATTGTGACTGTTTGGGATGTAACCACTCGGAAGAGTTTAATGGAATATGAAGAGCATGAAAAGCGTGCATGGAGTGTAGACTTTTCAAGAACAGATCCCTCTATGCTTGTATCTGGTAGCGATGACTGTAAGGTCAAAATTTGGTGCACTAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGTTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAGTTGGGTCAGCAGACCATCATATCCATTATTATGATTTGAGAAATATTAGCCGTCCAGTCCATGTTTTCAGTGGGCACAGGAAGGCTGTTTCATACGTGAAATTTCTGTCTAATGATGAACTTGCTTCTGCATCAACAGATAGTACACTGCGATTATGGGATGTGAAGGAAAACTTACCAGTTCGTACTTTCAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACAGTAAGCAGTGAATATATTGCGTGTGGCAGTGAAACAAATGAAGTCTTTGTTTACCACAAGGAAATCTCGAGACCTTTGACTTCGCACAGATTTGGGTCCCCTGATATGGATGACGCTGAAGATGAGGCTGGATCATATTTCATCAGCGCTGTTTGCTGGAAGAGTGATCGCCCCACTATTCTAACAGCAAATAGTCAAGGCACCATCAAAGTGCTGGTGCTTGCAGCTTGA

>Glyma02g43540.2   sequence type=CDS   gene model=Glyma02g43540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAACAAGAAGAAGCTGAGAGAAATATGCAAATATTGTTAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAGGTACAAACTGATCTCCACTTTATAAAAGAGGACATAAATGCTGTGGAGAAACATAGAATGGAATTGTATCGTGCACGGGACAGGTACTCTGTAAAATTGCAGATGCTTGACGGTTCTGGGGGAAGAAAATCATGGCATTCATCAATGGACAAGAACAGCAGTGGCCTTTTATCTAGTCCTCTAAATCTTCGAGGAGGGTTGTCATCAGGGAGCCATACTAAGAAAAATGATGGAAAGTCTCATATTAGCTCTCATGGGCATGGAATTCAGAGAAGGAATGTCATCACTGGATCCGATTCACAATATATAAATCAATCGGGTCTTGCTCTAGTTAGAAAGAAGAGGGTGCATACACAGTTCAATGATCTACAAGAATGTTACCTACAAAAGCGACGGCATGCAGCTGATAGGTCCCATAGCCAACAAGAAAGAGATATAAGTCTCATAAGTCGAGAAGGTTATACTGCTGGTCTTGAAGATTTTCAGTCAGTCTTGACAACTTTCACACGCTACAGCCGATTGAGAGTCATTGCGGAACTAAGACATGGGGATATATTTCATTCAGCAAATATAGTGTCAAGCATAGAGTTTGACCGCGATGATGATTTGTTTGCTACTGCTGGAGTTTCGCGGCGCATCAAAGTTTTTGACTTTTCTGCTGTTGTGAATGAACCTACAGATGCTCATTGTCCTGTTGTGGAGATGTCTACACGTTCAAAACTTAGTTGCTTGAGTTGGAATAAATTTGCTAAGAATCAAATAGCTAGTAGTGATTATGAAGGAATTGTGACTGTTTGGGATGTAACCACTCGGAAGAGTTTAATGGAATATGAAGAGCATGAAAAGCGTGCATGGAGTGTAGACTTTTCAAGAACAGATCCCTCTATGCTTGTATCTGGTAGCGATGACTGTAAGGTCAAAATTTGGTGCACTAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGTTGTGTCAAATATAATCCTGGATCTGGCAATTATATTGCAGTTGGGTCAGCAGACCATCATATCCATTATTATGATTTGAGAAATATTAGCCGTCCAGTCCATGTTTTCAGTGGGCACAGGAAGGCTGTTTCATACGTGAAATTTCTGTCTAATGATGAACTTGCTTCTGCATCAACAGATAGTACACTGCGATTATGGGATGTGAAGGAAAACTTACCAGTTCGTACTTTCAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACAGTAAGCAGTGAATATATTGCGTGTGGCAGTGAAACAAATGAAGTCTTTGTTTACCACAAGGAAATCTCGAGACCTTTGACTTCGCACAGATTTGGGTCCCCTGATATGGATGACGCTGAAGATGAGGCTGGATCATATTTCATCAGCGCTGTTTGCTGGAAGAGTGATCGCCCCACTATTCTAACAGCAAATAGTCAAGGCACCATCAAAGTGCTGGTGCTTGCAGCTTGA

Predicted protein sequences of Glyma02g43540

Limit To All Plant Sequences

>Glyma02g43540.1   sequence type=predicted peptide   gene model=Glyma02g43540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEELSAGPLVPAVVKPEPSKGASAAASGGTFPASTSEPDKDFLCPICMQIIKDPFLTACGHSFCYMCIITHLRNKSDCPCCGDYLTNTNLFPNLLLDKLLKKTSARQISKTASPVEHFRQVLQKGSDVSIKELDTLLSLLAEKKRKMEQEEAERNMQILLDFLHCLRKQKVDELKEVQTDLHFIKEDINAVEKHRMELYRARDRYSVKLQMLDGSGGRKSWHSSMDKNSSGLLSSPLNLRGGLSSGSHTKKNDGKSHISSHGHGIQRRNVITGSDSQYINQSGLALVRKKRVHTQFNDLQECYLQKRRHAADRSHSQQERDISLISREGYTAGLEDFQSVLTTFTRYSRLRVIAELRHGDIFHSANIVSSIEFDRDDDLFATAGVSRRIKVFDFSAVVNEPTDAHCPVVEMSTRSKLSCLSWNKFAKNQIASSDYEGIVTVWDVTTRKSLMEYEEHEKRAWSVDFSRTDPSMLVSGSDDCKVKIWCTNQEASVLNIDMKANICCVKYNPGSGNYIAVGSADHHIHYYDLRNISRPVHVFSGHRKAVSYVKFLSNDELASASTDSTLRLWDVKENLPVRTFKGHANEKNFVGLTVSSEYIACGSETNEVFVYHKEISRPLTSHRFGSPDMDDAEDEAGSYFISAVCWKSDRPTILTANSQGTIKVLVLAA*

>Glyma02g43540.2   sequence type=predicted peptide   gene model=Glyma02g43540   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEQEEAERNMQILLDFLHCLRKQKVDELKEVQTDLHFIKEDINAVEKHRMELYRARDRYSVKLQMLDGSGGRKSWHSSMDKNSSGLLSSPLNLRGGLSSGSHTKKNDGKSHISSHGHGIQRRNVITGSDSQYINQSGLALVRKKRVHTQFNDLQECYLQKRRHAADRSHSQQERDISLISREGYTAGLEDFQSVLTTFTRYSRLRVIAELRHGDIFHSANIVSSIEFDRDDDLFATAGVSRRIKVFDFSAVVNEPTDAHCPVVEMSTRSKLSCLSWNKFAKNQIASSDYEGIVTVWDVTTRKSLMEYEEHEKRAWSVDFSRTDPSMLVSGSDDCKVKIWCTNQEASVLNIDMKANICCVKYNPGSGNYIAVGSADHHIHYYDLRNISRPVHVFSGHRKAVSYVKFLSNDELASASTDSTLRLWDVKENLPVRTFKGHANEKNFVGLTVSSEYIACGSETNEVFVYHKEISRPLTSHRFGSPDMDDAEDEAGSYFISAVCWKSDRPTILTANSQGTIKVLVLAA*

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