Glyma02g47440 - SoyBase

SoyBase SoyBase transitions to NEW site on 10/1/2024
Integrating Genetics and Genomics to Advance Soybean Research

Warning: Undefined variable $sxsome in /var/www/html/include/SeqFeatClass.php on line 665

Warning: Undefined variable $sstart in /var/www/html/include/SeqFeatClass.php on line 665

Warning: Undefined variable $send in /var/www/html/include/SeqFeatClass.php on line 665

Warning: get_headers(): php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1018

Warning: get_headers(https://bar.utoronto.ca/api/efp_image/efp_soybean/soybean/Absolute/Glyma02g47440): Failed to open stream: php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1018

Warning: Trying to access array offset on false in /var/www/html/include/SeqFeatClass.php on line 1019

Warning: get_headers(): php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1020

Warning: get_headers(https://bar.utoronto.ca/api/efp_image/efp_soybean/soybean_severin/Absolute/Glyma02g47440): Failed to open stream: php_network_getaddresses: getaddrinfo for bar.utoronto.ca failed: Temporary failure in name resolution in /var/www/html/include/SeqFeatClass.php on line 1020

Warning: Trying to access array offset on false in /var/www/html/include/SeqFeatClass.php on line 1021

Deprecated: preg_match(): Passing null to parameter #2 ($subject) of type string is deprecated in /var/www/html/include/SeqFeatClass.php on line 1025

Deprecated: preg_match(): Passing null to parameter #2 ($subject) of type string is deprecated in /var/www/html/include/SeqFeatClass.php on line 1031

Report for Sequence Feature Glyma02g47440

Feature Type:	gene_model
Chromosome:	Gm02
Start:	51018801
stop:	51020306
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma02g47440

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G07370	AT	Annotation by Michelle Graham. TAIR10: proliferating cellular nuclear antigen 1 \| chr1:2263204-2264382 FORWARD LENGTH=263	SoyBase	E_val: 3.00E-49	ISS
GO:0006260	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA replication	SoyBase	N/A	ISS
GO:0006261	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA-dependent DNA replication	SoyBase	N/A	ISS
GO:0006275	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of DNA replication	SoyBase	N/A	ISS
GO:0006306	GO-bp	Annotation by Michelle Graham. GO Biological Process: DNA methylation	SoyBase	N/A	ISS
GO:0008283	GO-bp	Annotation by Michelle Graham. GO Biological Process: cell proliferation	SoyBase	N/A	ISS
GO:0009165	GO-bp	Annotation by Michelle Graham. GO Biological Process: nucleotide biosynthetic process	SoyBase	N/A	ISS
GO:0051567	GO-bp	Annotation by Michelle Graham. GO Biological Process: histone H3-K9 methylation	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:0005730	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleolus	SoyBase	N/A	ISS
GO:0005737	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm	SoyBase	N/A	ISS
GO:0043626	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: PCNA complex	SoyBase	N/A	ISS
GO:0003677	GO-mf	Annotation by Michelle Graham. GO Molecular Function: DNA binding	SoyBase	N/A	ISS
GO:0005515	GO-mf	Annotation by Michelle Graham. GO Molecular Function: protein binding	SoyBase	N/A	ISS
GO:0030337	GO-mf	Annotation by Michelle Graham. GO Molecular Function: DNA polymerase processivity factor activity	SoyBase	N/A	ISS
KOG1636	KOG	DNA polymerase delta processivity factor (proliferating cell nuclear antigen)	JGI		ISS
PF00705	PFAM	Proliferating cell nuclear antigen, N-terminal domain	JGI		ISS
PF02747	PFAM	Proliferating cell nuclear antigen, C-terminal domain	JGI		ISS
UniRef100_I1JJP0	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Proliferating cell nuclear antigen n=1 Tax=Glycine max RepID=I1JJP0_SOYBN	SoyBase	E_val: 7.00E-153	ISS
UniRef100_UPI0002337119	UniRef	Annotation by Michelle Graham. Best UniRef hit: UPI0002337119 related cluster n=1 Tax=unknown RepID=UPI0002337119	SoyBase	E_val: 0	ISS

Expression Patterns of Glyma02g47440

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

Glyma02g47440 not represented in the dataset	Glyma02g47440 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 Glyma02g47440

Paralog	Evidence	Comments
Glyma14g01310	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 Glyma02g47440 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.02g304300	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma02g47440

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

Transcripts of Glyma02g47440

Limit To All Plant Sequences

>Glyma02g47440.3   sequence type=transcript   gene model=Glyma02g47440   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
TATTTAAAATGGCGGGAATGGTTGCATTATAGAGAAAGTGGTTAAGTTGATTGGAAATAGAGAAAGAGAAGCAAGAAGTTAAGAAAGAAGATGGTGATGGAAGTTGTTCTGGGAGAAGCGTCAGAGGTGAAGAATGTGGTAGAGGCCATAGAGTTGGTGGAGACGGGCGTTGCCAAATTCGTTTTCTCAAGCAGAGGGTTGTCATTGAAAGCCATGGACAGCAGAGAGTGTGCAATGATGGAGATCCTCATCCCCTCCGATGCTTTCGCTCACTATCGCTGCGACAACGTCTTCTCCGTAGGCCTCAGTCTCGACCAAATGCTCCAGCTCCTCCACCGAGCCCACGATTCTGACATCGTCTCCCTCACAGCCCTAGAAGGCCAAGACCACGTCACCTTCACATTCCAATGCCCTAGCAACCTGAGTTTTTCTGATCATCGGATGAATCTGATGATGGATATCGACAATGGGCCCCTGCTCGATATTCACGAGGATGCCGAGTACCATGCCATTGTTGAGTTGCCTTCACCTGTCTTTACAACAATCTGCTGTCACATCGATTCTCTTTCCAACATTCGGATACTCCTATCTTGTTGGTCGCCGCTGGAGATTTTGGTCTCTGCATGCACTTGCCTCGTGGAGGCACTGTGATAGAGATGACTCAATGTGTGAGCCTGGCATTTGAAATAAGGTATCTGAACCTGGTCATGGCGGCAATGTCGTTGTCTGATACACTCACCATCCGCTTGTCAATGGAGCTGCCGGAGGCTGTGTTTGAGTACAAAATTGCTGCTGAGAAGGGTTATGTTCGCTTTCACTTGCCGATTGCTTTTAACGCATCTTATCTGTTAGATGATTAGATATAATGCAGGACCTGGCACCAACAGTGTTTGCTGGGGTTCCTGCGTAGATAAAAGGAATTGAACATTGTCATTTTCCAATTACGGCCCAATAAGGTGAAAAGGCATTTTCAATCATCAATAAAGGATTTAAAAATTGTCCATCGGCGAAGAAAGGACTTAAAAAAAGGTATAATTAGTAGATCAAATTGATAATGAGACGTAACGTTTGCACGTTTATCGACTTTCATAAATTTCAGGGTACTAATCTCACGGCCTTCTGCACTACGTTATGCTAAAAGAGAA

Coding sequences of Glyma02g47440

Limit To All Plant Sequences

>Glyma02g47440.2   sequence type=CDS   gene model=Glyma02g47440   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGTGATGGAAGTTGTTCTGGGAGAAGCGTCAGAGGTGAAGAATGTGGTAGAGGCCATAGAGTTGGTGGAGACGGGCGTTGCCAAATTCGTTTTCTCAAGCAGAGGGTTGTCATTGAAAGCCATGGACAGCAGAGAGTGTGCAATGATGGAGATCCTCATCCCCTCCGATGCTTTCGCTCACTATCGCTGCGACAACGTCTTCTCCGTAGGCCTCAGTCTCGACCAAATGCTCCAGCTCCTCCACCGAGCCCACGATTCTGACATCGTCTCCCTCACAGCCCTAGAAGGCCAAGACCACGTCACCTTCACATTCCAATGCCCTAGCAACCTGAGTTTTTCTGATCATCGGATGAATCTGATGATGGATATCGACAATGGGCCCCTGCTCGATATTCACGAGGATGCCGAGTACCATGCCATTGTTGAGTTGCCTTCACCTGTCTTTACAACAATCTGCTGTCACATCGATTCTCTTTCCAACATTCCTATAATTTCCATTATTGTCACAAGGGATACTCCTATCTTGTTGGTCGCCGCTGGAGATTTTGGTCTCTGCATGCACTTGCCTCGTGGAGGCACTGTGATAGAGATGACTCAATGTGTGAGCCTGGCATTTGAAATAAGGTATCTGAACCTGGTCATGGCGGCAATGTCGTTGTCTGATACACTCACCATCCGCTTGTCAATGGAGCTGCCGGAGGCTGTGTTTGAGTACAAAATTGCTGCTGAGAAGGGTTATGTTCGCTTTCACTTGCCGATTGCTTTTAACGCATCTTATCTGTTAGATGATTAG

>Glyma02g47440.3   sequence type=CDS   gene model=Glyma02g47440   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGTGATGGAAGTTGTTCTGGGAGAAGCGTCAGAGGTGAAGAATGTGGTAGAGGCCATAGAGTTGGTGGAGACGGGCGTTGCCAAATTCGTTTTCTCAAGCAGAGGGTTGTCATTGAAAGCCATGGACAGCAGAGAGTGTGCAATGATGGAGATCCTCATCCCCTCCGATGCTTTCGCTCACTATCGCTGCGACAACGTCTTCTCCGTAGGCCTCAGTCTCGACCAAATGCTCCAGCTCCTCCACCGAGCCCACGATTCTGACATCGTCTCCCTCACAGCCCTAGAAGGCCAAGACCACGTCACCTTCACATTCCAATGCCCTAGCAACCTGAGTTTTTCTGATCATCGGATGAATCTGATGATGGATATCGACAATGGGCCCCTGCTCGATATTCACGAGGATGCCGAGTACCATGCCATTGTTGAGTTGCCTTCACCTGTCTTTACAACAATCTGCTGTCACATCGATTCTCTTTCCAACATTCGGATACTCCTATCTTGTTGGTCGCCGCTGGAGATTTTGGTCTCTGCATGCACTTGCCTCGTGGAGGCACTGTGA

Predicted protein sequences of Glyma02g47440

Limit To All Plant Sequences

>Glyma02g47440.2   sequence type=predicted peptide   gene model=Glyma02g47440   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MVMEVVLGEASEVKNVVEAIELVETGVAKFVFSSRGLSLKAMDSRECAMMEILIPSDAFAHYRCDNVFSVGLSLDQMLQLLHRAHDSDIVSLTALEGQDHVTFTFQCPSNLSFSDHRMNLMMDIDNGPLLDIHEDAEYHAIVELPSPVFTTICCHIDSLSNIPIISIIVTRDTPILLVAAGDFGLCMHLPRGGTVIEMTQCVSLAFEIRYLNLVMAAMSLSDTLTIRLSMELPEAVFEYKIAAEKGYVRFHLPIAFNASYLLDD*

>Glyma02g47440.3   sequence type=predicted peptide   gene model=Glyma02g47440   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MVMEVVLGEASEVKNVVEAIELVETGVAKFVFSSRGLSLKAMDSRECAMMEILIPSDAFAHYRCDNVFSVGLSLDQMLQLLHRAHDSDIVSLTALEGQDHVTFTFQCPSNLSFSDHRMNLMMDIDNGPLLDIHEDAEYHAIVELPSPVFTTICCHIDSLSNIRILLSCWSPLEILVSACTCLVEAL*

Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA

U.S. Public Domain