Glyma18g52070 - SoyBase

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Report for Sequence Feature Glyma18g52070

Feature Type:	gene_model
Chromosome:	Gm18
Start:	60787743
stop:	60794941
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma18g52070

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G27980	AT	Annotation by Michelle Graham. TAIR10: dihydrosphingosine phosphate lyase \| chr1:9748812-9752618 FORWARD LENGTH=544	SoyBase	E_val: 0	ISS
GO:0006520	GO-bp	Annotation by Michelle Graham. GO Biological Process: cellular amino acid metabolic process	SoyBase	N/A	ISS
GO:0006635	GO-bp	Annotation by Michelle Graham. GO Biological Process: fatty acid beta-oxidation	SoyBase	N/A	ISS
GO:0006888	GO-bp	Annotation by Michelle Graham. GO Biological Process: ER to Golgi vesicle-mediated transport	SoyBase	N/A	ISS
GO:0009407	GO-bp	Annotation by Michelle Graham. GO Biological Process: toxin catabolic process	SoyBase	N/A	ISS
GO:0019752	GO-bp	Annotation by Michelle Graham. GO Biological Process: carboxylic acid metabolic process	SoyBase	N/A	ISS
GO:0030149	GO-bp	Annotation by Michelle Graham. GO Biological Process: sphingolipid catabolic process	SoyBase	N/A	ISS
GO:0043161	GO-bp	Annotation by Michelle Graham. GO Biological Process: proteasomal ubiquitin-dependent protein catabolic process	SoyBase	N/A	ISS
GO:0051788	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to misfolded protein	SoyBase	N/A	ISS
GO:0080129	GO-bp	Annotation by Michelle Graham. GO Biological Process: proteasome core complex assembly	SoyBase	N/A	ISS
GO:0005783	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: endoplasmic reticulum	SoyBase	N/A	ISS
GO:0016020	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: membrane	SoyBase	N/A	ISS
GO:0003824	GO-mf	Annotation by Michelle Graham. GO Molecular Function: catalytic activity	SoyBase	N/A	ISS
GO:0016831	GO-mf	Annotation by Michelle Graham. GO Molecular Function: carboxy-lyase activity	SoyBase	N/A	ISS
GO:0030170	GO-mf	Annotation by Michelle Graham. GO Molecular Function: pyridoxal phosphate binding	SoyBase	N/A	ISS
KOG1383	KOG	Glutamate decarboxylase/sphingosine phosphate lyase	JGI		ISS
PTHR11999	Panther	GROUP II PYRIDOXAL-5-PHOSPHATE DECARBOXYLASE	JGI		ISS
PTHR11999:SF5	Panther	SPHINGOSINE PHOSPHATE LYASE-RELATED	JGI		ISS
PF00282	PFAM	Pyridoxal-dependent decarboxylase conserved domain	JGI		ISS
UniRef100_G7KUR3	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Sphingosine-1-phosphate lyase n=1 Tax=Medicago truncatula RepID=G7KUR3_MEDTR	SoyBase	E_val: 0	ISS
UniRef100_UPI000233F54B	UniRef	Annotation by Michelle Graham. Best UniRef hit: UPI000233F54B related cluster n=1 Tax=unknown RepID=UPI000233F54B	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma18g52070

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 Glyma18g52070

Paralog	Evidence	Comments
Glyma02g10750	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 Glyma18g52070 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.18g284300	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma18g52070

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

Transcripts of Glyma18g52070

Limit To All Plant Sequences

>Glyma18g52070.2   sequence type=transcript   gene model=Glyma18g52070   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
CTCCCATCTCCATTCCTTCCAATGGCTTCAATCTCTCACTTCAGAACCTCCGCGAATTCCTTCCTCTCCCAATACGAACCTCTCTCTCTGCTTCTCGCTCCTCTCCTCTCTCTCCTCTTCGCTCACGCTCTCCGCTCCTTCTTCCACCTCCTCTCCCAGAACGGACTCAAAGCCACGCTCCTAGGGTTTCTCATTAACTCCCTCAAATTAGTCCCTGGCGTGAAGGGATACATAGATGCCGAAAAACAAAAGGTTGTGGATAAGTTGCAATCTGATGGTAAATCTAAAAGAGAAGGTTGGAAAACTGAGTTGCCAAGCACAGGATTAGGGACATCTGTCCTTGAGAAAATGAGAGAGGAGAAAATAAATGATGCGGTTTGGCAAGGCAAATGCTCTGCTACATTGGAGGAAGTGAATCTGATGGACATTTTTCTCTGATAAATGAGGCATGTTCAATGTTTGCTCATACCAATCCCCTGCATTTGGATGTTTTCAAGAGTGTTGCACGCTTTGAGGCAGAAGTGGTTGCAATGACAGCAGCACTTCTTGGAAGTAAGGAAAAGAGTTCTGGACGACAAATATGTGGCAACATGACGTCAGGCGGGACTGAAAGTATATTATTAGCTGTCAAGTCATCTCGTGACTATATGAAATCTAAGAAAGGAATTACAAGACCTGAAATGATTATTCCCGAGTCTGGGCACTCGGCATATGACAAGGCTGCACAGTATTTTAATATCAAACTATGGCGTGTACCAGTTAACAAGAATTTCCAAGCTGATGTGAAAGCGATCCGACGTCATATTAACAAAAATACCATCTTGATTGTTGGATCTGCTCCAGGGTTTCCTCATGGAGTAATTGACCCCATTGAAGAACTTGGTCATCTGGCATCAAGCTTTGGTATTTGTTTCCATGTGGACCTTTGCCTTGGTGGCTTTGTATTACCATTTGCTCGTGAGCTTGGGTACCACATTCCACCTTTTGATTTTTCTGTTAAAGGGGTTTCTTCAATATCAGTGGATGTACATAAATACGGTTTAGCTCCCAAAGGAACTAGCGTAGTTCTTTACAGAAACCATGAAATCAGAAAGCATCAATTTGTTGCTGTTACCGAGTGGTCTGGTGGGCTGTATGTATCTCCAACCATAGCTGGAAGCAGGCCTGGAAGTCTTATTGCCGGTGCATGGGCAGCGATGATATCTCTAGGGAAAGAAGGTTACTTGAAAAATACAAAAGAAATTATGGAAGGGTCAAGAAGAATACAGCAAGGCATAGAGGAGATTGCTGAGTTGTTTATTGTTGGAAAACCCGACATGACGATAGTGGCTTTTGGATCCGACGTTCTAGATATATTCGAAGTCAATGATGTTATGTCATCCAAAGGGTGGCATTTGAATGCATTACAGCGACCCAACAGCATCCATATCTGTGTGACACTGCAACATGTGCCAATTGTTGAAGACTTTCTCAATGATCTGAAGGAATCTGTGAAAACTGTGAAAGCAAATCCAGGTCCAATAAGTGGAGGCCTAGCACCTATATATGGCGCCGCAGGGAAGATGCCAGATAGAGGCATGGTCCAGGAATTGCTGGTAGATTATATGGACGGTACCTGCTAATGGCGTTCGACATTTCTACCAGACTTTTCTGGCGACATGTACTGTAGTGGACCTTTACTTGATAATATTCCATTTTATAGTGCATTCTTTCATATTGGGGAGAAAACTGAAGACTAATAATAAGGCCTTGTTTGTTTGTGTGTGTGCCATTGTACGTTTAAGAGGCCACGTTGTTTTAGATTCACATCTGAGCATTATTATCATGGATGGGTGGGGGGGGAGTTCGTTGCTATTTCACAATCTTGCTCTTGACATTGAGGACAGTAATATTTCTGAAACCCCCATAACCAAAAATAATGCACATGTGATTGATTGTACAAAAACAAAATGTACGTGTGATTGATAATCATCATAAATATAAGGGTGAAAATCAGGGTTACAGACCAGTGTAATGCTTATCCATCAGTCCACAATAAGAGCTGGGCATGGATAGGAACAGTATTTTTGTCGTGATGATAAAAAAATTTGGAGGGAATCTTACTTTGTTCTCCTTGATGAGTAATTACATTACATTGTCATCCTTTCTAATTTTAAAATGTTTTT

Coding sequences of Glyma18g52070

Limit To All Plant Sequences

>Glyma18g52070.1   sequence type=CDS   gene model=Glyma18g52070   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGCTTCAATCTCTCACTTCAGAACCTCCGCGAATTCCTTCCTCTCCCAATACGAACCTCTCTCTCTGCTTCTCGCTCCTCTCCTCTCTCTCCTCTTCGCTCACGCTCTCCGCTCCTTCTTCCACCTCCTCTCCCAGAACGGACTCAAAGCCACGCTCCTAGGGTTTCTCATTAACTCCCTCAAATTAGTCCCTGGCGTGAAGGGATACATAGATGCCGAAAAACAAAAGGTTGTGGATAAGTTGCAATCTGATGGTAAATCTAAAAGAGAAGGTTGGAAAACTGAGTTGCCAAGCACAGGATTAGGGACATCTGTCCTTGAGAAAATGAGAGAGGAGAAAATAAATGATGCGGTTTGGCAAGGCAAATGCTCTGGTACAGTCTACATTGGAGGAAGTGAATCTGATGGACATTTTTCTCTGATAAATGAGGCATGTTCAATGTTTGCTCATACCAATCCCCTGCATTTGGATGTTTTCAAGAGTGTTGCACGCTTTGAGGCAGAAGTGGTTGCAATGACAGCAGCACTTCTTGGAAGTAAGGAAAAGAGTTCTGGACGACAAATATGTGGCAACATGACGTCAGGCGGGACTGAAAGTATATTATTAGCTGTCAAGTCATCTCGTGACTATATGAAATCTAAGAAAGGAATTACAAGACCTGAAATGATTATTCCCGAGTCTGGGCACTCGGCATATGACAAGGCTGCACAGTATTTTAATATCAAACTATGGCGTGTACCAGTTAACAAGAATTTCCAAGCTGATGTGAAAGCGATCCGACGTCATATTAACAAAAATACCATCTTGATTGTTGGATCTGCTCCAGGGTTTCCTCATGGAGTAATTGACCCCATTGAAGAACTTGGTCATCTGGCATCAAGCTTTGGTATTTGTTTCCATGTGGACCTTTGCCTTGGTGGCTTTGTATTACCATTTGCTCGTGAGCTTGGGTACCACATTCCACCTTTTGATTTTTCTGTTAAAGGGGTTTCTTCAATATCAGTGGATGTACATAAATACGGTTTAGCTCCCAAAGGAACTAGCGTAGTTCTTTACAGAAACCATGAAATCAGAAAGCATCAATTTGTTGCTGTTACCGAGTGGTCTGGTGGGCTGTATGTATCTCCAACCATAGCTGGAAGCAGGCCTGGAAGTCTTATTGCCGGTGCATGGGCAGCGATGATATCTCTAGGGAAAGAAGGTTACTTGAAAAATACAAAAGAAATTATGGAAGGGTCAAGAAGAATACAGCAAGGCATAGAGGAGATTGCTGAGTTGTTTATTGTTGGAAAACCCGACATGACGATAGTGGCTTTTGGATCCGACGTTCTAGATATATTCGAAGTCAATGATGTTATGTCATCCAAAGGGTGGCATTTGAATGCATTACAGCGACCCAACAGCATCCATATCTGTGTGACACTGCAACATGTGCCAATTGTTGAAGACTTTCTCAATGATCTGAAGGAATCTGTGAAAACTGTGAAAGCAAATCCAGGTCCAATAAGTGGAGGCCTAGCACCTATATATGGCGCCGCAGGGAAGATGCCAGATAGAGGCATGGTCCAGGAATTGCTGGTAGATTATATGGACGGTACCTGCTAA

>Glyma18g52070.2   sequence type=CDS   gene model=Glyma18g52070   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCTCTGCTACATTGGAGGAAGTGAATCTGATGGACATTTTTCTCTGATAAATGAGGCATGTTCAATGTTTGCTCATACCAATCCCCTGCATTTGGATGTTTTCAAGAGTGTTGCACGCTTTGAGGCAGAAGTGGTTGCAATGACAGCAGCACTTCTTGGAAGTAAGGAAAAGAGTTCTGGACGACAAATATGTGGCAACATGACGTCAGGCGGGACTGAAAGTATATTATTAGCTGTCAAGTCATCTCGTGACTATATGAAATCTAAGAAAGGAATTACAAGACCTGAAATGATTATTCCCGAGTCTGGGCACTCGGCATATGACAAGGCTGCACAGTATTTTAATATCAAACTATGGCGTGTACCAGTTAACAAGAATTTCCAAGCTGATGTGAAAGCGATCCGACGTCATATTAACAAAAATACCATCTTGATTGTTGGATCTGCTCCAGGGTTTCCTCATGGAGTAATTGACCCCATTGAAGAACTTGGTCATCTGGCATCAAGCTTTGGTATTTGTTTCCATGTGGACCTTTGCCTTGGTGGCTTTGTATTACCATTTGCTCGTGAGCTTGGGTACCACATTCCACCTTTTGATTTTTCTGTTAAAGGGGTTTCTTCAATATCAGTGGATGTACATAAATACGGTTTAGCTCCCAAAGGAACTAGCGTAGTTCTTTACAGAAACCATGAAATCAGAAAGCATCAATTTGTTGCTGTTACCGAGTGGTCTGGTGGGCTGTATGTATCTCCAACCATAGCTGGAAGCAGGCCTGGAAGTCTTATTGCCGGTGCATGGGCAGCGATGATATCTCTAGGGAAAGAAGGTTACTTGAAAAATACAAAAGAAATTATGGAAGGGTCAAGAAGAATACAGCAAGGCATAGAGGAGATTGCTGAGTTGTTTATTGTTGGAAAACCCGACATGACGATAGTGGCTTTTGGATCCGACGTTCTAGATATATTCGAAGTCAATGATGTTATGTCATCCAAAGGGTGGCATTTGAATGCATTACAGCGACCCAACAGCATCCATATCTGTGTGACACTGCAACATGTGCCAATTGTTGAAGACTTTCTCAATGATCTGAAGGAATCTGTGAAAACTGTGAAAGCAAATCCAGGTCCAATAAGTGGAGGCCTAGCACCTATATATGGCGCCGCAGGGAAGATGCCAGATAGAGGCATGGTCCAGGAATTGCTGGTAGATTATATGGACGGTACCTGCTAA

Predicted protein sequences of Glyma18g52070

Limit To All Plant Sequences

>Glyma18g52070.1   sequence type=predicted peptide   gene model=Glyma18g52070   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MASISHFRTSANSFLSQYEPLSLLLAPLLSLLFAHALRSFFHLLSQNGLKATLLGFLINSLKLVPGVKGYIDAEKQKVVDKLQSDGKSKREGWKTELPSTGLGTSVLEKMREEKINDAVWQGKCSGTVYIGGSESDGHFSLINEACSMFAHTNPLHLDVFKSVARFEAEVVAMTAALLGSKEKSSGRQICGNMTSGGTESILLAVKSSRDYMKSKKGITRPEMIIPESGHSAYDKAAQYFNIKLWRVPVNKNFQADVKAIRRHINKNTILIVGSAPGFPHGVIDPIEELGHLASSFGICFHVDLCLGGFVLPFARELGYHIPPFDFSVKGVSSISVDVHKYGLAPKGTSVVLYRNHEIRKHQFVAVTEWSGGLYVSPTIAGSRPGSLIAGAWAAMISLGKEGYLKNTKEIMEGSRRIQQGIEEIAELFIVGKPDMTIVAFGSDVLDIFEVNDVMSSKGWHLNALQRPNSIHICVTLQHVPIVEDFLNDLKESVKTVKANPGPISGGLAPIYGAAGKMPDRGMVQELLVDYMDGTC*

>Glyma18g52070.2   sequence type=predicted peptide   gene model=Glyma18g52070   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MLCYIGGSESDGHFSLINEACSMFAHTNPLHLDVFKSVARFEAEVVAMTAALLGSKEKSSGRQICGNMTSGGTESILLAVKSSRDYMKSKKGITRPEMIIPESGHSAYDKAAQYFNIKLWRVPVNKNFQADVKAIRRHINKNTILIVGSAPGFPHGVIDPIEELGHLASSFGICFHVDLCLGGFVLPFARELGYHIPPFDFSVKGVSSISVDVHKYGLAPKGTSVVLYRNHEIRKHQFVAVTEWSGGLYVSPTIAGSRPGSLIAGAWAAMISLGKEGYLKNTKEIMEGSRRIQQGIEEIAELFIVGKPDMTIVAFGSDVLDIFEVNDVMSSKGWHLNALQRPNSIHICVTLQHVPIVEDFLNDLKESVKTVKANPGPISGGLAPIYGAAGKMPDRGMVQELLVDYMDGTC*

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