Glyma12g02890 - SoyBase

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Report for Sequence Feature Glyma12g02890

Feature Type:	gene_model
Chromosome:	Gm12
Start:	1852064
stop:	1855805
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma12g02890

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT3G02820	AT	Annotation by Michelle Graham. TAIR10: zinc knuckle (CCHC-type) family protein \| chr3:611573-613294 FORWARD LENGTH=282	SoyBase	E_val: 1.00E-90	ISS
GO:0006261	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA-dependent DNA replication	SoyBase	N/A	ISS
GO:0006270	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA replication initiation	SoyBase	N/A	ISS
GO:0006275	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of DNA replication	SoyBase	N/A	ISS
GO:0006974	GO-bp	Annotation by Michelle Graham. GO Biological Process: response to DNA damage stimulus	SoyBase	N/A	ISS
GO:0007049	GO-bp	Annotation by Michelle Graham. GO Biological Process: cell cycle	SoyBase	N/A	ISS
GO:0010228	GO-bp	Annotation by Michelle Graham. GO Biological Process: vegetative to reproductive phase transition of meristem	SoyBase	N/A	ISS
GO:0048478	GO-bp	Annotation by Michelle Graham. GO Biological Process: replication fork protection	SoyBase	N/A	ISS
GO:0051726	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of cell cycle	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
GO:0008270	GO-mf	Annotation by Michelle Graham. GO Molecular Function: zinc ion binding	SoyBase	N/A	ISS
KOG3004	KOG	Meiotic chromosome segregation protein	JGI		ISS
PTHR13220	Panther	TIMELESS INTERACTING-RELATED	JGI		ISS
PTHR13220:SF1	Panther	gb def: mitotic phosphoprotein 67 [xenopus laevis]	JGI		ISS
PF00098	PFAM	Zinc knuckle	JGI		ISS
PF07962	PFAM	Replication Fork Protection Component Swi3	JGI		ISS
UniRef100_G7JPI7	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: TIMELESS-interacting protein n=1 Tax=Medicago truncatula RepID=G7JPI7_MEDTR	SoyBase	E_val: 4.00E-129	ISS
UniRef100_I1LPI5	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1LPI5_SOYBN	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma12g02890

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

Glyma12g02890 not represented in the dataset	Glyma12g02890 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 Glyma12g02890

Paralog	Evidence	Comments
Glyma11g10610	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 Glyma12g02890 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.12g025700	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma12g02890

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

Transcripts of Glyma12g02890

Limit To All Plant Sequences

>Glyma12g02890.2   sequence type=transcript   gene model=Glyma12g02890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GCCATTTCCCGCGAAAAGAAGCGAGTAAAAAAAATCAAATTTAATTTCCACAGTGACATAGATCGTGCAATGCGAGAGTTGTGAATCGTTGTTGCAGAGAAAAATATGGAGGGAACCGCAACAGGGTGTTACAAGTGCGGCAGACCTGGTCACTGGTCACGGGATTGCCCTTTCTCCGCTCCCAATTCCAATCCTAACCCTAACCCTAACCCTAACCCTAACCCCGCCACCACTCCCAATCCAAATACTCCAAATCCTTCTTCCTCTTCTTTCAAGCCCAGATTCGCCGCCGAAAAGCCCAAGAAACTCCCCCGAACAAAGCCCAAGCTCACACCGGAGCTTCTTCTCTCCGACGAGGGTCTCGGTTACGTCCTCCGCTACTTCCCTCGCGAGTTCAAATACCGTGGTGGTGGCCACGAGGTTCGCGATTTGGGTAACCTGCTTCGTCTGTACACCGAATGGCACTCTCGCTTGCTCCCTTATTACTCTTTCAATCAGTTTGTTCACAAAGTGGAGAAAGTTGCTGCTACAAGGCGTGTAAAGACTTGCCTTAGAGAATTGAGAGAAAGAGTTGCAAGTGGTGGAGATCCAACAAAACTGCGTGAACCACCTGTTGTGCATGACATTCCATCTGATGAGCACGGATATGTTGTATCTGCAGAAGATGGGGGAGCAACTCATCAAGAGACAGATGTGTTTGCAGAATCCGAAAATGTTAATGACATTCAAGAAGACATGCTTAATGATATATATGATAAAGCTACTGAAGAACATGCTCAGTCCATGCACAATGTTATTGGTACTAACAAGGCTTCAGAAAGTAGCGCAGCTGAAAAGACATCAGAGGAAGTTCAATATAATGGATCCAGCCAGTCTGGCAAAGCTGAGATAACAGAAGAGCAGAGGGCTCGTATGGAAGCAAATAGGTTGAAGGCACTAGAAAGGCGAGCTGAGATAACAGAAGAGCAGAGAGCTCGTATGGAAGCCAATAGGTTAAAGGCACTAGAAAGGCGTGCTGCCTTATCACAAGCCTCCTAACTTTGATCTGAATTGTAAATGAAAGCATTACTTCTTGTTGTCTCACAACTGGTTGAGTTGTCCTTAAGTCCCCTCATGAATTAAGTAGTTTACTTTTTATGGTTTGGTGACTGTTATTTAGGTGCTTGTGATTATGATGTCATAACAGTAAATAAATTTGTGTCGATATTAGCTTCATGTTTAAGTTTCAAGTGGCGGGCCTATTTAATTTGTTTGGGGGCACTTTAACCCTATTTAAAGTGCATGACAATGATAGTGCAGACACTTCGAAAATAAGCTGAGAATTTACTTACATGTGTGCATGTTTGAAAATCTAGTGAAAAATTACTTAAG

Coding sequences of Glyma12g02890

Limit To All Plant Sequences

>Glyma12g02890.1   sequence type=CDS   gene model=Glyma12g02890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAGGGAACCGCAACAGGGTGTTACAAGTGCGGCAGACCTGGTCACTGGTCACGGGATTGCCCTTTCTCCGCTCCCAATTCCAATCCTAACCCTAACCCTAACCCTAACCCTAACCCCGCCACCACTCCCAATCCAAATACTCCAAATCCTTCTTCCTCTTCTTTCAAGCCCAGATTCGCCGCCGAAAAGCCCAAGAAACTCCCCCGAACAAAGCCCAAGCTCACACCGGAGCTTCTTCTCTCCGACGAGGGTCTCGGTTACGTCCTCCGCTACTTCCCTCGCGAGTTCAAATACCGTGGTGGTGGCCACGAGGTTCGCGATTTGGGTAACCTGCTTCGTCTGTACACCGAATGGCACTCTCGCTTGCTCCCTTATTACTCTTTCAATCAGTTTGTTCACAAAGTGGAGAAAGTTGCTGCTACAAGGCGTGTAAAGACTTGCCTTAGAGAATTGAGAGAAAGAGTTGCAAGTGGTGGAGATCCAACAAAACTGCGTGAACCACCTGTTGTGCATGACATTCCATCTGATGAGCACGAAGATGGGGGAGCAACTCATCAAGAGACAGATGTGTTTGCAGAATCCGAAAATGTTAATGACATTCAAGAAGACATGCTTAATGATATATATGATAAAGCTACTGAAGAACATGCTCAGTCCATGCACAATGTTATTGGTACTAACAAGGCTTCAGAAAGTAGCGCAGCTGAAAAGACATCAGAGGAAGTTCAATATAATGGATCCAGCCAGTCTGGCAAAGCTGAGATAACAGAAGAGCAGAGGGCTCGTATGGAAGCAAATAGGTTGAAGGCACTAGAAAGGCGAGCTGAGATAACAGAAGAGCAGAGAGCTCGTATGGAAGCCAATAGGTTAAAGGCACTAGAAAGGCGTGCTGCCTTATCACAAGCCTCCTAA

>Glyma12g02890.2   sequence type=CDS   gene model=Glyma12g02890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGAGGGAACCGCAACAGGGTGTTACAAGTGCGGCAGACCTGGTCACTGGTCACGGGATTGCCCTTTCTCCGCTCCCAATTCCAATCCTAACCCTAACCCTAACCCTAACCCTAACCCCGCCACCACTCCCAATCCAAATACTCCAAATCCTTCTTCCTCTTCTTTCAAGCCCAGATTCGCCGCCGAAAAGCCCAAGAAACTCCCCCGAACAAAGCCCAAGCTCACACCGGAGCTTCTTCTCTCCGACGAGGGTCTCGGTTACGTCCTCCGCTACTTCCCTCGCGAGTTCAAATACCGTGGTGGTGGCCACGAGGTTCGCGATTTGGGTAACCTGCTTCGTCTGTACACCGAATGGCACTCTCGCTTGCTCCCTTATTACTCTTTCAATCAGTTTGTTCACAAAGTGGAGAAAGTTGCTGCTACAAGGCGTGTAAAGACTTGCCTTAGAGAATTGAGAGAAAGAGTTGCAAGTGGTGGAGATCCAACAAAACTGCGTGAACCACCTGTTGTGCATGACATTCCATCTGATGAGCACGGATATGTTGTATCTGCAGAAGATGGGGGAGCAACTCATCAAGAGACAGATGTGTTTGCAGAATCCGAAAATGTTAATGACATTCAAGAAGACATGCTTAATGATATATATGATAAAGCTACTGAAGAACATGCTCAGTCCATGCACAATGTTATTGGTACTAACAAGGCTTCAGAAAGTAGCGCAGCTGAAAAGACATCAGAGGAAGTTCAATATAATGGATCCAGCCAGTCTGGCAAAGCTGAGATAACAGAAGAGCAGAGGGCTCGTATGGAAGCAAATAGGTTGAAGGCACTAGAAAGGCGAGCTGAGATAACAGAAGAGCAGAGAGCTCGTATGGAAGCCAATAGGTTAAAGGCACTAGAAAGGCGTGCTGCCTTATCACAAGCCTCCTAA

Predicted protein sequences of Glyma12g02890

Limit To All Plant Sequences

>Glyma12g02890.1   sequence type=predicted peptide   gene model=Glyma12g02890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEGTATGCYKCGRPGHWSRDCPFSAPNSNPNPNPNPNPNPATTPNPNTPNPSSSSFKPRFAAEKPKKLPRTKPKLTPELLLSDEGLGYVLRYFPREFKYRGGGHEVRDLGNLLRLYTEWHSRLLPYYSFNQFVHKVEKVAATRRVKTCLRELRERVASGGDPTKLREPPVVHDIPSDEHEDGGATHQETDVFAESENVNDIQEDMLNDIYDKATEEHAQSMHNVIGTNKASESSAAEKTSEEVQYNGSSQSGKAEITEEQRARMEANRLKALERRAEITEEQRARMEANRLKALERRAALSQAS*

>Glyma12g02890.2   sequence type=predicted peptide   gene model=Glyma12g02890   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MEGTATGCYKCGRPGHWSRDCPFSAPNSNPNPNPNPNPNPATTPNPNTPNPSSSSFKPRFAAEKPKKLPRTKPKLTPELLLSDEGLGYVLRYFPREFKYRGGGHEVRDLGNLLRLYTEWHSRLLPYYSFNQFVHKVEKVAATRRVKTCLRELRERVASGGDPTKLREPPVVHDIPSDEHGYVVSAEDGGATHQETDVFAESENVNDIQEDMLNDIYDKATEEHAQSMHNVIGTNKASESSAAEKTSEEVQYNGSSQSGKAEITEEQRARMEANRLKALERRAEITEEQRARMEANRLKALERRAALSQAS*

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