Glyma13g00960 - SoyBase

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Report for Sequence Feature Glyma13g00960

Feature Type:	gene_model
Chromosome:	Gm13
Start:	684885
stop:	691843
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma13g00960

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G02920	AT	Annotation by Michelle Graham. TAIR10: Replication protein A, subunit RPA32 \| chr3:651844-654189 REVERSE LENGTH=278	SoyBase	E_val: 2.00E-80	ISS
GO:0006261	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA-dependent DNA replication	SoyBase	N/A	ISS
GO:0008150	GO-bp	Annotation by Michelle Graham. GO Biological Process: biological process	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0003676	GO-mf	Annotation by Michelle Graham. GO Molecular Function: nucleic acid binding	SoyBase	N/A	ISS
KOG3108	KOG	Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit	JGI		ISS
PTHR13989	Panther	REPLICATION PROTEIN A-RELATED	JGI		ISS
PTHR13989:SF7	Panther	REPLICATION PROTEIN A	JGI		ISS
PF01336	PFAM	OB-fold nucleic acid binding domain	JGI		ISS
PF08784	PFAM	Replication protein A C terminal	JGI		ISS
UniRef100_G7JVE0	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Replication factor A protein n=1 Tax=Medicago truncatula RepID=G7JVE0_MEDTR	SoyBase	E_val: 1.00E-108	ISS
UniRef100_I1LVQ9	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1LVQ9_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma13g00960

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 Glyma13g00960

Paralog	Evidence	Comments
Glyma17g07020	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 Glyma13g00960 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.13g096800	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma13g00960

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

Transcripts of Glyma13g00960

Limit To All Plant Sequences

>Glyma13g00960.3   sequence type=transcript   gene model=Glyma13g00960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
CTTTGATTCGGTCCCAACCATAATAAAAAAAAATAAAAGAATAATTGGAATGAGTTGTGATGTATTAAAAAGTCTTTTTTTAAAATACATATACAAATCAAATAAGATCCAAAACAAAAATTCTTGTAAAATTCTTGTAATGTGACTCACTATTTTTTTAGCACATGAAACGCACCTTTCAGCACGGTTCATTTGAAAATTCTGCTGGCGCTCTCGCGCTCACGTTTGTTTGTTTCTCGTTTTCGCAATCTCGATCTTTTCTCTCTGAAACATGTATTCGAGTGCAAGCCAGTTTGACGGCAATGCAGCCTTCTCCGGTGGTGGATTCATGCCTTCTCAGACCACCCAGGGCCCTGACTCTTCATTCGTTCCCTCCAAGAATCGTGACGCTCAGTCCTTGCTTCCTCTGACGGTGAAGCAGATATACGATGCGTCTCAGTCAAGTGATGATAAAATCAATTTGATCATTGACGGTGTGGACGTTACCAATGTCACTCTTGTAGGAAGGGTGTCCAACAAAGCTGGACGAATTACTGATGTTACTTTTGTGCTTGATGATGGTACGGGAAGGATTGAGTGTAATAAATGGCTTCATGAAGCTGTTGATACAAATGAAGCAGAGGCTATCTTGGAAGGAATGTATGCGAGGCTCCATGGACAATTGAAACATTTTCAGGGTAAAAGGACCTTAAATGTTTTCTCATTTAGGCCTGTGACTGACTTTAATGAGATTGCTAGTCATTTCACCGACTGCATATATGTGCATCTCTACAATTCCAAATTAAGGACTAGTGTCCCTAATCAGCAGCATTCCTCACCAATTCCTCCCACAATAGGTTATCAAGCTCAAGTTGTTCCGCCAACAAATCAGTTCTCTGATCAGCATGTCAATGGTCAGAAGGGTGTTACTGTTGAAGCCATGGTCTTAGATTTTTTGCATCATCCCGCAAACAGCTCAAGGAATGAGGGGGTCCATCGTGATCATATTGCACAACATCTTGGAATTTCTTTGGATAAGCTCATGCTGGCTGTTAAAAATCTTATTGATGAAGGTGCCATTTATGAAACCATAGGTGATCACTATAAGTCAATCATCAATGGTTGATACCTTGTTGGATAAGGACAACGATTTTGTTAGAGTATGCTAACTCTGCGTATGCATTCTAGTGCTGTTACACAAGCAAAACAACAGTTCTACTAGATTTTGATCGACTTGTTTTTCTACTATATGTTAATATTATGAACCGGTAATATGTAACAAAATATATATAACATCATATGGAATGTATCTGTTGTGCGAAGCGTTTTTGTCTTATTGATGAACCAGTTTCAATGGGTTGTCGATACTATAGTCAGTAGTGGTACGTATCTGTAATTTGTAATGAGCAAGGATGCTTTACATAATGTTTGGTGGAGGGAAATAGACAAAAAGGAATGAGAGGAATTTTCTTAAACTACTATTGTTTGTTTTAAATTTTAGCTGGAGTAAAATGTAG

Coding sequences of Glyma13g00960

Limit To All Plant Sequences

>Glyma13g00960.2   sequence type=CDS   gene model=Glyma13g00960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTATTCGAGTGCAAGCCAGTTTGACGGCAATGCAGCCTTCTCCGGTGGTGGATTCATGCCTTCTCAGACCACCCAGGGCCCTGACTCTTCATTCGTTCCCTCCAAGAATCGTGACGCTCAGTCCTTGCTTCCTCTGACGGTGAAGCAGATATACGATGCGTCTCAGTCAAGTGATGATAAAATCAATTTGATCATTGACGGTGTGGACGTTACCAATGTCACTCTTGTAGGAAGGGTGTCCAACAAAGCTGGACGAATTACTGATGTTACTTTTGTGCTTGATGATGGTACGGGAAGGATTGAGTGTAATAAATGGCTTCATGAAGCTGTTGATACAAATGAAGCAGAGGCTATCTTGGAAGGAATGTATGCGAGGCTCCATGGACAATTGAAACATTTTCAGGGTAAAAGGACCTTAAATGTTTTCTCATTTAGGCCTGTGACTGACTTTAATGAGATTGCTAGTCATTTCACCGACTGCATATATGTGCATCTCTACAATTCCAAATTAAGGACTAGTGTCCCTAATCAGCAGCATTCCTCACCAATTCCTCCCACAATAGGTTATCAAGCTCAAGTTGTTCCGCCAACAAATCAGTTCTCTGATCAGCATGTCAATGGTCAGAAGGGTGTTACTGTTGAAGCCATGGTCTTAGATTTTTTGCATCATCCCGCAAACAGCTCAAGGAATGAGGGGGTCCATCGTGATCATATTGCACAACATCTTGGAATTTCTTTGGATAAGCTCATGCTGGCTGTTAAAAATCTTATTGATGAAGGTGCCATTTATGAAACCATAGGTGATCACTATAAGTCAATCATCAATGGTTGA

>Glyma13g00960.3   sequence type=CDS   gene model=Glyma13g00960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTATTCGAGTGCAAGCCAGTTTGACGGCAATGCAGCCTTCTCCGGTGGTGGATTCATGCCTTCTCAGACCACCCAGGGCCCTGACTCTTCATTCGTTCCCTCCAAGAATCGTGACGCTCAGTCCTTGCTTCCTCTGACGGTGAAGCAGATATACGATGCGTCTCAGTCAAGTGATGATAAAATCAATTTGATCATTGACGGTGTGGACGTTACCAATGTCACTCTTGTAGGAAGGGTGTCCAACAAAGCTGGACGAATTACTGATGTTACTTTTGTGCTTGATGATGGTACGGGAAGGATTGAGTGTAATAAATGGCTTCATGAAGCTGTTGATACAAATGAAGCAGAGGCTATCTTGGAAGGAATGTATGCGAGGCTCCATGGACAATTGAAACATTTTCAGGGTAAAAGGACCTTAAATGTTTTCTCATTTAGGCCTGTGACTGACTTTAATGAGATTGCTAGTCATTTCACCGACTGCATATATGTGCATCTCTACAATTCCAAATTAAGGACTAGTGTCCCTAATCAGCAGCATTCCTCACCAATTCCTCCCACAATAGGTTATCAAGCTCAAGTTGTTCCGCCAACAAATCAGTTCTCTGATCAGCATGTCAATGGTCAGAAGGGTGTTACTGTTGAAGCCATGGTCTTAGATTTTTTGCATCATCCCGCAAACAGCTCAAGGAATGAGGGGGTCCATCGTGATCATATTGCACAACATCTTGGAATTTCTTTGGATAAGCTCATGCTGGCTGTTAAAAATCTTATTGATGAAGGTGCCATTTATGAAACCATAGGTGATCACTATAAGTCAATCATCAATGGTTGA

Predicted protein sequences of Glyma13g00960

Limit To All Plant Sequences

>Glyma13g00960.2   sequence type=predicted peptide   gene model=Glyma13g00960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MYSSASQFDGNAAFSGGGFMPSQTTQGPDSSFVPSKNRDAQSLLPLTVKQIYDASQSSDDKINLIIDGVDVTNVTLVGRVSNKAGRITDVTFVLDDGTGRIECNKWLHEAVDTNEAEAILEGMYARLHGQLKHFQGKRTLNVFSFRPVTDFNEIASHFTDCIYVHLYNSKLRTSVPNQQHSSPIPPTIGYQAQVVPPTNQFSDQHVNGQKGVTVEAMVLDFLHHPANSSRNEGVHRDHIAQHLGISLDKLMLAVKNLIDEGAIYETIGDHYKSIING*

>Glyma13g00960.3   sequence type=predicted peptide   gene model=Glyma13g00960   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MYSSASQFDGNAAFSGGGFMPSQTTQGPDSSFVPSKNRDAQSLLPLTVKQIYDASQSSDDKINLIIDGVDVTNVTLVGRVSNKAGRITDVTFVLDDGTGRIECNKWLHEAVDTNEAEAILEGMYARLHGQLKHFQGKRTLNVFSFRPVTDFNEIASHFTDCIYVHLYNSKLRTSVPNQQHSSPIPPTIGYQAQVVPPTNQFSDQHVNGQKGVTVEAMVLDFLHHPANSSRNEGVHRDHIAQHLGISLDKLMLAVKNLIDEGAIYETIGDHYKSIING*

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