Glyma17g06340 - SoyBase

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Report for Sequence Feature Glyma17g06340

Feature Type:	gene_model
Chromosome:	Gm17
Start:	4506000
stop:	4507492
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma17g06340

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT5G20600	AT	Annotation by Michelle Graham. TAIR10: FUNCTIONS IN: molecular_function unknown; INVOLVED IN: rRNA processing; LOCATED IN: preribosome, small subunit precursor; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Nucleolar, Nop52 (InterPro:IPR010301); Has 543 Blast hits to 530 proteins in 201 species: Archae - 0; Bacteria - 10; Metazoa - 211; Fungi - 164; Plants - 46; Viruses - 0; Other Eukaryotes - 112 (source: NCBI BLink). \| chr5:6966345-6967943 REVERSE LENGTH=532	SoyBase	E_val: 1.00E-96	ISS
GO:0006364	GO-bp	Annotation by Michelle Graham. GO Biological Process: rRNA processing	SoyBase	N/A	ISS
GO:0006606	GO-bp	Annotation by Michelle Graham. GO Biological Process: protein import into nucleus	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0005829	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytosol	SoyBase	N/A	ISS
GO:0003674	GO-mf	Annotation by Michelle Graham. GO Molecular Function: molecular function	SoyBase	N/A	ISS
KOG3911	KOG	Nucleolar protein NOP52/RRP1	JGI		ISS
PTHR13026	Panther	NNP-1 PROTEIN (NOVEL NUCLEAR PROTEIN 1) (NOP52)	JGI		ISS
PF05997	PFAM	Nucleolar protein,Nop52	JGI		ISS
UniRef100_G7JKJ1	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Ribosomal RNA processing protein-like protein n=1 Tax=Medicago truncatula RepID=G7JKJ1_MEDTR	SoyBase	E_val: 5.00E-108	ISS
UniRef100_I1MSI0	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1MSI0_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma17g06340

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 Glyma17g06340

Paralog	Evidence	Comments
Glyma13g00261	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 Glyma17g06340 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.17g055800	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma17g06340

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

Coding sequences of Glyma17g06340

Limit To All Plant Sequences

>Glyma17g06340.1   sequence type=CDS   gene model=Glyma17g06340   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GTTCAATTTCCAGACATCAGAATCCTCAAAGCAGCTATTAGGGTTTCTGTTTCTTCCTCATCTATGGAGGAGCACGCTTCCCATGTGGGTCGCTCCCTCGTGAAGCAGCTGGCATGCTGCAAGAGAACCACCAGAGACAAATCCCTCCGCCTCCTCCTCAAATCATGGCTCCCGTCGCAGTCCCAACCCCTCTCCGACGACGACGCCAAGAAGCTCTGGAAGGGTCTCTTCTACTGCATGTGGCACTCCGACAAGCCCCTCGTCCAATCCGATCTCGTCGATCGCCTCTCCTCTCTCCTTCTGTCCCTCCACCTCTCCGTCTCCCTACAGTACTTCTCCACCTTCCTCCTCACCATGCGCCGCGAGTGGTCCGGCATCGATGCGCTGCGACTCGACAAGTTCTACCTCCTCATCCGCAGGTTTGTCTCCAAGTTCTTCTCCCTCATGAAAACCAATTCCTGGGATCTCCAACTCGTGCATCGCTTGATCAATGTTTTGGACGAGAACACTCTCTCCTCTTTGGAGAACAAGTCTCACGGGAACGGTGTTAATTACCACATTGCCACTGTGTTTCTTGAGGAGCTTCGACCTTTTCTCCCGCTCAAGCAGGAGGTTCTCGAGGTGCTGCTGAAGCCGTTTGTTTCGGCTATGGGGAAGGTGCAGGATAAGGTCTTGGTGGGGAAGATTAGGTCTGGTGTGTTTGATTTGTTGCTTAAGACGGGGAAGAGTTTGTTGGAGGTTAAGAAGAGTGGGGACGGGGTTGAGGTTGATTCTCGTGATGAGGTTCTTCTAATTGGAACAGTTGCACTGGATTCGAGTGACAAGGAAAATGTGGCTAGTGAGAATGGTGGGAATTTGAACGATGAAAGCGCAGTGCTGTTAAATGAAACTATGATTGCTAACCTGCAAAGGCAATTTGAGAAGGTTGCTGAGGAGGCGGGCTTGGATGATGGAGTTGCGAGCGCGTGTGATTCGCCTCAGGCTGTGTCTGCTTCCGGAAGAACTCTGTCTAAGAAGAGGAAGAGGACAAAGAGTTTGAAAGGGAAGGTGTCTCAGGATTCTGCTGAATTGGATGGCGAGGAGAGTGCAGTCGCAAAGGGTGGGGAGAAAAGTAAAAAGAAGGTAAGATTTTCGATGAAAAATAACTTGGTGTGGAAGCCACAAAATCCTTTACCTCCTCAGAGTTTGAGGTTGCCTCCCTCTGCAACACCCAGAGGAAGTGCACTCAAAAAGGGTTTGCCTCCAGGTCCTATCAGGGAGATGCCTCTTCCTACCAAAAAGCCAAAACTGAAGAGGGCCAGGAAGTCAATTAAGGGTGTTGCTCCTGTCAAACGCCTGAAGAAATTAAAATCGCGTGCTGCATGA

Predicted protein sequences of Glyma17g06340

Limit To All Plant Sequences

>Glyma17g06340.1   sequence type=predicted peptide   gene model=Glyma17g06340   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
VQFPDIRILKAAIRVSVSSSSMEEHASHVGRSLVKQLACCKRTTRDKSLRLLLKSWLPSQSQPLSDDDAKKLWKGLFYCMWHSDKPLVQSDLVDRLSSLLLSLHLSVSLQYFSTFLLTMRREWSGIDALRLDKFYLLIRRFVSKFFSLMKTNSWDLQLVHRLINVLDENTLSSLENKSHGNGVNYHIATVFLEELRPFLPLKQEVLEVLLKPFVSAMGKVQDKVLVGKIRSGVFDLLLKTGKSLLEVKKSGDGVEVDSRDEVLLIGTVALDSSDKENVASENGGNLNDESAVLLNETMIANLQRQFEKVAEEAGLDDGVASACDSPQAVSASGRTLSKKRKRTKSLKGKVSQDSAELDGEESAVAKGGEKSKKKVRFSMKNNLVWKPQNPLPPQSLRLPPSATPRGSALKKGLPPGPIREMPLPTKKPKLKRARKSIKGVAPVKRLKKLKSRAA*

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