Glyma13g17960 - SoyBase

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Report for Sequence Feature Glyma13g17960

Feature Type:	gene_model
Chromosome:	Gm13
Start:	21638140
stop:	21640632
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma13g17960

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G06950	AT	Annotation by Michelle Graham. TAIR10: Pseudouridine synthase family protein \| chr3:2192869-2194254 FORWARD LENGTH=323	SoyBase	E_val: 1.00E-149	ISS
GO:0001522	GO-bp	Annotation by Michelle Graham. GO Biological Process: pseudouridine synthesis	SoyBase	N/A	ISS
GO:0006730	GO-bp	Annotation by Michelle Graham. GO Biological Process: one-carbon metabolic process	SoyBase	N/A	ISS
GO:0009451	GO-bp	Annotation by Michelle Graham. GO Biological Process: RNA modification	SoyBase	N/A	ISS
GO:0009507	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast	SoyBase	N/A	ISS
GO:0003723	GO-mf	Annotation by Michelle Graham. GO Molecular Function: RNA binding	SoyBase	N/A	ISS
GO:0009982	GO-mf	Annotation by Michelle Graham. GO Molecular Function: pseudouridine synthase activity	SoyBase	N/A	ISS
KOG4393	KOG	Predicted pseudouridylate synthase	JGI		ISS
PTHR11142	Panther	PSEUDOURIDYLATE SYNTHASE	JGI		ISS
PF01416	PFAM	tRNA pseudouridine synthase	JGI		ISS
UniRef100_I1LYF8	UniRef	Annotation by Michelle Graham. Best UniRef hit: Pseudouridine synthase (Fragment) n=2 Tax=Glycine max RepID=I1LYF8_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_I1LYF8	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Pseudouridine synthase (Fragment) n=2 Tax=Glycine max RepID=I1LYF8_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma13g17960

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

Glyma13g17960 not represented in the dataset	Glyma13g17960 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 Glyma13g17960

Paralog	Evidence	Comments
Glyma17g04571	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 Glyma13g17960 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.13g119200	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma13g17960

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

Transcripts of Glyma13g17960

Limit To All Plant Sequences

>Glyma13g17960.2   sequence type=transcript   gene model=Glyma13g17960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
AAAGTAAAATGGATAATGAAGAAAAAGTGTTGATTTTGTGAGATGAGTCATGCAGTAGCAGTAGGAGCACTTGCTGTTCCATCTCCAACTCCCATCCCTTTTTTGAATTCCACTGCTCCAGTGGAATTGGAACATGGTCATGGTCATGGGGTGAAGCTCATTCAAGATGGGTATAAGTGGCGCATCGTTTTGGCTTACGATGGAACCCAATACGCAGGCTGGCAATATCAGGAGTCTCCCCCTACTGTACAATGCACCGTGGAGAAAGCTTTAACTCAGGCAACAAAGCTTCAAAGGAAGGATCTCTGTTTGGTTGGTGCAAGCAGGACCGATGCAGGAGTCCATGCTTGGGGTCAGGTTGCTCATTTTTTTACACCTTTTAACTATGACAACTTGGAACAACTTCATGCAGCTTTGAACGGTCTTCTTCCTACTGATATCCGAATTAGAGAGATCAGCCCTGCATCAGCTGAATTCCATGCTCGATTTTCTGCCAAAAGTAAGATTTACCATTACAAGATATACAATGATGCCATCATGGATCCATTCCAACGGCACTTTGCTTACCATAGTGTGTATAAACTCAATAGCGCTGTTATGAGAGAAGCTGCAACATATTTTGTTGGCAAGCATGATTTCTCTGCCTTTGCCAATGCATCCCACAATGATCGGGTACCAGATCCAGTGAAGCATGTATTCCGATTCGATTTGAAAGAAATGGGAGCTCTTTTGCAACTAGAAGTTGAAGGCTCAGGTTTTTTATATAGGCAAGTCCGAAACATGGTGGCTTTGTTGCTTCAGATTGGTAGGGAAGCTATCCCTCCTGACATTGTACCACATATTCTGGCGAGTCGAGATCGCAAAGAGCTTGCAAAATACTCCTTGCCTGCCCCTCCACATGGTCTTTGTCTTGTTTCTATCAACTATAATGAAAGTCACCTATTGCCTCCGCCGGAGTCCCCCCCTGCAAACAGTTTTGGTAGACATCAGACCATAAGGAAATGCAAGGTTCCATTCTTTTTGTAATAATAGGCAGCAAAACAAACAATCTAACTATCTTTTGGACTGTTTTTTTTTTTACATTTAGATTTTAAGGTTGTTTAAACTTCAAAGATTTCATTTGATTGAAGTACTCTATTTGTTTAATTCAAATA

>Glyma13g17960.3   sequence type=transcript   gene model=Glyma13g17960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
AAAGTAAAATGGATAATGAAGAAAAAGTGTTGATTTTGTGAGATGAGTCATGCAGTAGCAGTAGGAGCACTTGCTGTTCCATCTCCAACTCCCATCCCTTTTTTGAATTCCACTGCTCCAGTGGAATTGGAACATGGTCATGGTCATGGGGTGAAGCTCATTCAAGATGGGTATAAGTGGCGCATCGTTTTGGCTTACGATGGAACCCAATACGCAGGCTGGCAATATCAGGAGTCTCCCCCTACTGTACAATGCACCGTGGAGAAAGCTTTAACTCAGGCAACAAAGCTTCAAAGGAAGGATCTCTGTTTGGTTGGTGCAAGCAGGACCGATGCAGGAGTCCATGCTTGGGGTTGCTCATTTTTTTACACCTTTTAACTATGACAACTTGGAACAACTTCATGCAGCTTTGAACGGTCTTCTTCCTACTGATATCCGAATTAGAGAGATCAGCCCTGCATCAGCTGAATTCCATGCTCGATTTTCTGCCAAAAGTAAGATTTACCATTACAAGATATACAATGATGCCATCATGGATCCATTCCAACGGCACTTTGCTTACCATAGTGTGTATAAACTCAATAGCGCTGTTATGAGAGAAGCTGCAACATATTTTGTTGGCAAGCATGATTTCTCTGCCTTTGCCAATGCATCCCACAATGATCGGGTACCAGATCCAGTGAAGCATGTATTCCGATTCGATTTGAAAGAAATGGGAGCTCTTTTGCAACTAGAAGTTGAAGGCTCAGGTTTTTTATATAGGCAAGTCCGAAACATGGTGGCTTTGTTGCTTCAGATTGGTAGGGAAGCTATCCCTCCTGACATTGTACCACATATTCTGGCGAGTCGAGATCGCAAAGAGCTTGCAAAATACTCCTTGCCTGCCCCTCCACATGGTCTTTGTCTTGTTTCTATCAACTATAATGAAAGTCACCTATTGCCTCCGCCGGAGTCCCCCCCTGCAAACAGTTTTGGTAGACATCAGACCATAAGGAAATGCAAGGTTCCATTCTTTTTGTAATAATAGGCAGCAAAACAAACAATCTAACTATCTTTTGGACTGTTTTTTTTTTTACATTTAGATTTTAAGGTTGTTTAAACTTCAAAGATTTCATTTGATTGAAGTACTCTATTTGTTTAATTCAAATA

Coding sequences of Glyma13g17960

Limit To All Plant Sequences

>Glyma13g17960.1   sequence type=CDS   gene model=Glyma13g17960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGGTATAAGTGGCGCATCGTTTTGGCTTACGATGGAACCCAATACGCAGGAGTCTCCCCCTACTGTACAATGCACCGTGGAGAAAGCTTTAACTCAGGCAACAAAGCTTCAAAGGAAGGATCTCTGTTTGGTTGGTGCAAGCAGGACCGATGCAGGAGTCCATGCTTGGGGTCAGGTTGCTCATTTTTTTACACCTTTTAACTATGACAACTTGGAACAACTTCATGCAGCTTTGAACGGTCTTCTTCCTACTGATATCCGAATTAGAGAGATCAGCCCTGCATCAGCTGAATTCCATGCTCGATTTTCTGCCAAAAGTAAGATTTACCATTACAAGATATACAATGATGCCATCATGGATCCATTCCAACGGCACTTTGCTTACCATAGTGTGTATAAACTCAATAGCGCTGTTATGAGAGAAGCTGCAACATATTTTGTTGGCAAGCATGATTTCTCTGCCTTTGCCAATGCATCCCACAATGATCGGGTACCAGATCCAGTGAAGCATGTATTCCGATTCGATTTGAAAGAAATGGGAGCTCTTTTGCAACTAGAAGTTGAAGGCTCAGGTTTTTTATATAGGCAAGTCCGAAACATGGTGGCTTTGTTGCTTCAGATTGGTAGGGAAGCTATCCCTCCTGACATTGTACCACATATTCTGGCGAGTCGAGATCGCAAAGAGCTTGCAAAATACTCCTTGCCTGCCCCTCCACATGGTCTTTGTCTTGTTTCTATCAACTATAATGAAAGTCACCTATTGCCTCCGCCGGAGTCCCCCCCTGCAAACAGTTTTGGTAGACATCAGACCATAAGGAAATGCAAGGTTCCATTCTTTTTGTAA

>Glyma13g17960.2   sequence type=CDS   gene model=Glyma13g17960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAGTCATGCAGTAGCAGTAGGAGCACTTGCTGTTCCATCTCCAACTCCCATCCCTTTTTTGAATTCCACTGCTCCAGTGGAATTGGAACATGGTCATGGTCATGGGGTGAAGCTCATTCAAGATGGGTATAAGTGGCGCATCGTTTTGGCTTACGATGGAACCCAATACGCAGGCTGGCAATATCAGGAGTCTCCCCCTACTGTACAATGCACCGTGGAGAAAGCTTTAACTCAGGCAACAAAGCTTCAAAGGAAGGATCTCTGTTTGGTTGGTGCAAGCAGGACCGATGCAGGAGTCCATGCTTGGGGTCAGGTTGCTCATTTTTTTACACCTTTTAACTATGACAACTTGGAACAACTTCATGCAGCTTTGAACGGTCTTCTTCCTACTGATATCCGAATTAGAGAGATCAGCCCTGCATCAGCTGAATTCCATGCTCGATTTTCTGCCAAAAGTAAGATTTACCATTACAAGATATACAATGATGCCATCATGGATCCATTCCAACGGCACTTTGCTTACCATAGTGTGTATAAACTCAATAGCGCTGTTATGAGAGAAGCTGCAACATATTTTGTTGGCAAGCATGATTTCTCTGCCTTTGCCAATGCATCCCACAATGATCGGGTACCAGATCCAGTGAAGCATGTATTCCGATTCGATTTGAAAGAAATGGGAGCTCTTTTGCAACTAGAAGTTGAAGGCTCAGGTTTTTTATATAGGCAAGTCCGAAACATGGTGGCTTTGTTGCTTCAGATTGGTAGGGAAGCTATCCCTCCTGACATTGTACCACATATTCTGGCGAGTCGAGATCGCAAAGAGCTTGCAAAATACTCCTTGCCTGCCCCTCCACATGGTCTTTGTCTTGTTTCTATCAACTATAATGAAAGTCACCTATTGCCTCCGCCGGAGTCCCCCCCTGCAAACAGTTTTGGTAGACATCAGACCATAAGGAAATGCAAGGTTCCATTCTTTTTGTAA

>Glyma13g17960.3   sequence type=CDS   gene model=Glyma13g17960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGCAGGAGTCCATGCTTGGGGTTGCTCATTTTTTTACACCTTTTAACTATGACAACTTGGAACAACTTCATGCAGCTTTGAACGGTCTTCTTCCTACTGATATCCGAATTAGAGAGATCAGCCCTGCATCAGCTGAATTCCATGCTCGATTTTCTGCCAAAAGTAAGATTTACCATTACAAGATATACAATGATGCCATCATGGATCCATTCCAACGGCACTTTGCTTACCATAGTGTGTATAAACTCAATAGCGCTGTTATGAGAGAAGCTGCAACATATTTTGTTGGCAAGCATGATTTCTCTGCCTTTGCCAATGCATCCCACAATGATCGGGTACCAGATCCAGTGAAGCATGTATTCCGATTCGATTTGAAAGAAATGGGAGCTCTTTTGCAACTAGAAGTTGAAGGCTCAGGTTTTTTATATAGGCAAGTCCGAAACATGGTGGCTTTGTTGCTTCAGATTGGTAGGGAAGCTATCCCTCCTGACATTGTACCACATATTCTGGCGAGTCGAGATCGCAAAGAGCTTGCAAAATACTCCTTGCCTGCCCCTCCACATGGTCTTTGTCTTGTTTCTATCAACTATAATGAAAGTCACCTATTGCCTCCGCCGGAGTCCCCCCCTGCAAACAGTTTTGGTAGACATCAGACCATAAGGAAATGCAAGGTTCCATTCTTTTTGTAA

Predicted protein sequences of Glyma13g17960

Limit To All Plant Sequences

>Glyma13g17960.1   sequence type=predicted peptide   gene model=Glyma13g17960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MGISGASFWLTMEPNTQESPPTVQCTVEKALTQATKLQRKDLCLVGASRTDAGVHAWGQVAHFFTPFNYDNLEQLHAALNGLLPTDIRIREISPASAEFHARFSAKSKIYHYKIYNDAIMDPFQRHFAYHSVYKLNSAVMREAATYFVGKHDFSAFANASHNDRVPDPVKHVFRFDLKEMGALLQLEVEGSGFLYRQVRNMVALLLQIGREAIPPDIVPHILASRDRKELAKYSLPAPPHGLCLVSINYNESHLLPPPESPPANSFGRHQTIRKCKVPFFL*

>Glyma13g17960.2   sequence type=predicted peptide   gene model=Glyma13g17960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSHAVAVGALAVPSPTPIPFLNSTAPVELEHGHGHGVKLIQDGYKWRIVLAYDGTQYAGWQYQESPPTVQCTVEKALTQATKLQRKDLCLVGASRTDAGVHAWGQVAHFFTPFNYDNLEQLHAALNGLLPTDIRIREISPASAEFHARFSAKSKIYHYKIYNDAIMDPFQRHFAYHSVYKLNSAVMREAATYFVGKHDFSAFANASHNDRVPDPVKHVFRFDLKEMGALLQLEVEGSGFLYRQVRNMVALLLQIGREAIPPDIVPHILASRDRKELAKYSLPAPPHGLCLVSINYNESHLLPPPESPPANSFGRHQTIRKCKVPFFL*

>Glyma13g17960.3   sequence type=predicted peptide   gene model=Glyma13g17960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MQESMLGVAHFFTPFNYDNLEQLHAALNGLLPTDIRIREISPASAEFHARFSAKSKIYHYKIYNDAIMDPFQRHFAYHSVYKLNSAVMREAATYFVGKHDFSAFANASHNDRVPDPVKHVFRFDLKEMGALLQLEVEGSGFLYRQVRNMVALLLQIGREAIPPDIVPHILASRDRKELAKYSLPAPPHGLCLVSINYNESHLLPPPESPPANSFGRHQTIRKCKVPFFL*

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