Glyma18g16280 - 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/Glyma18g16280): 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/Glyma18g16280): 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 Glyma18g16280

Feature Type:	gene_model
Chromosome:	Gm18
Start:	16705948
stop:	16710897
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma18g16280

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G26665	AT	Annotation by Michelle Graham. TAIR10: Mediator complex, subunit Med10 \| chr1:9214510-9215426 FORWARD LENGTH=189	SoyBase	E_val: 1.00E-87	ISS
GO:0006357	GO-bp	Annotation by Michelle Graham. GO Biological Process: regulation of transcription from RNA polymerase II promoter	SoyBase	N/A	ISS
GO:0005634	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: nucleus	SoyBase	N/A	ISS
GO:0016592	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: mediator complex	SoyBase	N/A	ISS
KOG3046	KOG	Transcription factor, subunit of SRB subcomplex of RNA polymerase II	JGI		ISS
PTHR13345	Panther	NUT2 AND UXT	JGI		ISS
PTHR13345:SF2	Panther	gb def: negative regulator of urs2 of the ho promoter, nut2p [saccharomyces cerevisiae]	JGI		ISS
PF09748	PFAM	Transcription factor subunit Med10 of Mediator complex	JGI		ISS
UniRef100_C6TKB8	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=C6TKB8_SOYBN	SoyBase	E_val: 4.00E-136	ISS
UniRef100_G7LHY0	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: Mediator of RNA polymerase II transcription subunit n=2 Tax=Medicago truncatula RepID=G7LHY0_MEDTR	SoyBase	E_val: 6.00E-97	ISS

Expression Patterns of Glyma18g16280

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

Glyma18g16280 not represented in the dataset	Glyma18g16280 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 Glyma18g16280

Paralog	Evidence	Comments
Glyma08g40780	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 Glyma18g16280 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.18g125700	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma18g16280

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

Transcripts of Glyma18g16280

Limit To All Plant Sequences

>Glyma18g16280.3   sequence type=transcript   gene model=Glyma18g16280   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GTGTTCCGCAGGTGAGGAAGGATTTCCCCGACTTCACCTTAGCTATCGCCGAAAACCCGTACCTTCATATAAACATATATATATCTGATACTCTCACGTTTCACGCGTCCTTCTCCCACCGCACCCCACACTTCCGGCACCGTCGGAACTCAGCACCGCACATCTGCACCCCACACTCGTCTTCTCACAACCGTCAATCGCAGTCACAGCGCACAGCTTCGAGTTCAGAGGTCCCCCCCTTCACTGCAACGTTTTCACCTTGATTTCTTCAGAATAGCGGCGGTTATCCTCTATCCTGCTATATTGGTTTTTCGGTCGGCTGCTATGTGCCGCTACTCAAGATTCAAAACATTCTGCTCTAGTTCTCTCTCACAAGCTTTCTCCAGCTTTGCAACTAGCTTTGTCTGACTCTGGCATATATTTTTGTTCTTCAGAAAAATACTAATGGATTCATCACAAAGTGCGGCTCTTGGGGGAAATGGTGGGAGTGGTGGAAATGGGACGTTGATTTCTCAAATTAATGACATGGCAGCCTCTGCAACAGGAGCTGATGATTCTATGCAGAAGCTGAACCAGGTCAGCAACTCCATTCAGAAAACCTTGGGCCTTATCCATCAGCTTTACCTCACAGTTTCTACCTTCAATGCTGCCTTTCAAATGCCTCTCCTCCAACGCATCAATGGCCTTGTTGCGGAGCTTGACAACATGGTTAAATTGGCAGAGAAGTGCAACATTCAGGTTCCTATGGAGGTTGTCAATTTAATTGATGATGGAAAGAATCCAGACGAATTTACCAAAGATGTTATAAACAGCTGTATTGCAAAGAATCAGATCACCAAAGGAAAAACTGATGCTTTAAAGAGTTTGCGCAAACATCTTTTGGAGGAATTGGAGCAGAACTTCCCTGATGAGGTTGAAACTTTTAGAGAGAGTCGTACTGCTGCAGCTGCTGAGTTGAAACGTCAGGCACAAAGCGCACTGCCAAATGGAGATGTGAGAGTTAAATCAGAGCATTGAGTGATATATTTCTTGTGTCTTCTAGCGTTTATGTATGCACTGTATAGTGGAGTTCAGCACTGTTCCTTGTTTCTGCATGTTGGTTAAATGCTGTAAATTTGATGACTAATTTTTGCTTACTATTAATTACTTAATTTGGCTTGTTGCTATTTTTTGAGTGTGCATGTTTCAATGAGAGGTTGAGGTGCCGGGGAAGTGGAAATTAATTGGTGTTATTAGTTTTCTTTAACACTGGTAAGTTTCAAAGAAAGA

>Glyma18g16280.4   sequence type=transcript   gene model=Glyma18g16280   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
GTGTTCCGCAGGTGAGGAAGGATTTCCCCGACTTCACCTTAGCTATCGCCGAAAACCCGTACCTTCATATAAACATATATATATCTGATACTCTCACGTTTCACGCGTCCTTCTCCCACCGCACCCCACACTTCCGGCACCGTCGGAACTCAGCACCGCACATCTGCACCCCACACTCGTCTTCTCACAACCGTCAATCGCAGTCACAGCGCACAGGTCCATCTTAGTTTTATCCCTTTTAGGGTTCTAAACTAATACCGCTTTGGCTATTTTTATGAGTGATCTCAACTGTAATTCGTTGTTCCTATATTCTAAGCCAAAGATAACGTTTCTGAGTTTCGCAATTTGTATTTCGCTTTTTTATTTCATTGGTTAGTTTTTCAATTTTGGTTTATTTAATTTGCGCTTCGATATCTATTTCATTGATTAGTGTTCCAATTTTCATTTTAATTTGTGCTTCCATTTGGATCTCTAAATTATCTGAACTGAATCATACACGCGTTGTTACTCAGCTTCGAGTTCAGAGGTCCCCCCCTTCACTGCAACGTTTTCACCTTGATTTCTTCAGCTCTAGTTCTCTCTCACAAGCTTTCTCCAGCTTTGCAACTAGCTTTGTCTGACTCTGGCATATATTTTTGTTCTTCAGAAAAATACTAATGGATTCATCACAAAGTGCGGCTCTTGGGGGAAATGGTGGGAGTGGTGGAAATGGGACGTTGATTTCTCAAATTAATGACATGGCAGCCTCTGCAACAGGAGCTGATGATTCTATGCAGAAGCTGAACCAGGTCAGCAACTCCATTCAGAAAACCTTGGGCCTTATCCATCAGCTTTACCTCACAGTTTCTACCTTCAATGCTGCCTTTCAAATGCCTCTCCTCCAACGCATCAATGGCCTTGTTGCGGAGCTTGACAACATGGTTAAATTGGCAGAGAAGTGCAACATTCAGGTTCCTATGGAGGTTGTCAATTTAATTGATGATGGAAAGAATCCAGACGAATTTACCAAAGATGTTATAAACAGCTGTATTGCAAAGAATCAGATCACCAAAGGAAAAACTGATGCTTTAAAGAGTTTGCGCAAACATCTTTTGGAGGAATTGGAGCAGAACTTCCCTGATGAGGTTGAAACTTTTAGAGAGAGTCGTACTGCTGCAGCTGCTGAGTTGAAACGTCAGGCACAAAGCGCACTGCCAAATGGAGATGTGAGAGTTAAATCAGAGCATTGAGTGATATATTTCTTGTGTCTTCTAGCGTTTATGTATGCACTGTATAGTGGAGTTCAGCACTGTTCCTTGTTTCTGCATGTTGGTTAAATGCTGTAAATTTGATGACTAATTTTTGCTTACTATTAATTACTTAATTTGGCTTGTTGCTATTTTTTGAGTGTGCATGTTTCAATGAGAGGTTGAGGTGCCGGGGAAGTGGAAATTAATTGGTGTTATTAGTTTTCTTTAACACTGGTAAGTTTCAAAGAAAGA

Coding sequences of Glyma18g16280

Limit To All Plant Sequences

>Glyma18g16280.2   sequence type=CDS   gene model=Glyma18g16280   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGATTCATCACAAAGTGCGGCTCTTGGGGGAAATGGTGGGAGTGGTGGAAATGGGACGTTGATTTCTCAAATTAATGACATGGCAGCCTCTGCAACAGGAGCTGATGATTCTATGCAGAAGCTGAACCAGGTCAGCAACTCCATTCAGAAAACCTTGGGCCTTATCCATCAGCTTTACCTCACAGTTTCTACCTTCAATGCTGCCTTTCAAATGCCTCTCCTCCAACGCATCAATGGCCTTGTTGCGGAGCTTGACAACATGGTTAAATTGGCAGAGAAGTGCAACATTCAGGTTCCTATGGAGGTTGTCAATTTAATTGATGATGGAAAGAATCCAGACGAATTTACCAAAGATGTTATAAACAGCTGTATTGCAAAGAATCAGATCACCAAAGGAAAAACTGATGCTTTAAAGAGTTTGCGCAAACATCTTTTGGAGGAATTGGAGCAGAACTTCCCTGATGAGGTTGAAACTTTTAGAGAGAGTCGTACTGCTGCAGCTGCTGAGTTGAAACGTCAGGCACAAAGCGCACTGCCAAATGGAGATGTGAGAGTTAAATCAGAGCATTGA

>Glyma18g16280.3   sequence type=CDS   gene model=Glyma18g16280   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGATTCATCACAAAGTGCGGCTCTTGGGGGAAATGGTGGGAGTGGTGGAAATGGGACGTTGATTTCTCAAATTAATGACATGGCAGCCTCTGCAACAGGAGCTGATGATTCTATGCAGAAGCTGAACCAGGTCAGCAACTCCATTCAGAAAACCTTGGGCCTTATCCATCAGCTTTACCTCACAGTTTCTACCTTCAATGCTGCCTTTCAAATGCCTCTCCTCCAACGCATCAATGGCCTTGTTGCGGAGCTTGACAACATGGTTAAATTGGCAGAGAAGTGCAACATTCAGGTTCCTATGGAGGTTGTCAATTTAATTGATGATGGAAAGAATCCAGACGAATTTACCAAAGATGTTATAAACAGCTGTATTGCAAAGAATCAGATCACCAAAGGAAAAACTGATGCTTTAAAGAGTTTGCGCAAACATCTTTTGGAGGAATTGGAGCAGAACTTCCCTGATGAGGTTGAAACTTTTAGAGAGAGTCGTACTGCTGCAGCTGCTGAGTTGAAACGTCAGGCACAAAGCGCACTGCCAAATGGAGATGTGAGAGTTAAATCAGAGCATTGA

>Glyma18g16280.4   sequence type=CDS   gene model=Glyma18g16280   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGATTCATCACAAAGTGCGGCTCTTGGGGGAAATGGTGGGAGTGGTGGAAATGGGACGTTGATTTCTCAAATTAATGACATGGCAGCCTCTGCAACAGGAGCTGATGATTCTATGCAGAAGCTGAACCAGGTCAGCAACTCCATTCAGAAAACCTTGGGCCTTATCCATCAGCTTTACCTCACAGTTTCTACCTTCAATGCTGCCTTTCAAATGCCTCTCCTCCAACGCATCAATGGCCTTGTTGCGGAGCTTGACAACATGGTTAAATTGGCAGAGAAGTGCAACATTCAGGTTCCTATGGAGGTTGTCAATTTAATTGATGATGGAAAGAATCCAGACGAATTTACCAAAGATGTTATAAACAGCTGTATTGCAAAGAATCAGATCACCAAAGGAAAAACTGATGCTTTAAAGAGTTTGCGCAAACATCTTTTGGAGGAATTGGAGCAGAACTTCCCTGATGAGGTTGAAACTTTTAGAGAGAGTCGTACTGCTGCAGCTGCTGAGTTGAAACGTCAGGCACAAAGCGCACTGCCAAATGGAGATGTGAGAGTTAAATCAGAGCATTGA

Predicted protein sequences of Glyma18g16280

Limit To All Plant Sequences

>Glyma18g16280.2   sequence type=predicted peptide   gene model=Glyma18g16280   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MDSSQSAALGGNGGSGGNGTLISQINDMAASATGADDSMQKLNQVSNSIQKTLGLIHQLYLTVSTFNAAFQMPLLQRINGLVAELDNMVKLAEKCNIQVPMEVVNLIDDGKNPDEFTKDVINSCIAKNQITKGKTDALKSLRKHLLEELEQNFPDEVETFRESRTAAAAELKRQAQSALPNGDVRVKSEH*

>Glyma18g16280.3   sequence type=predicted peptide   gene model=Glyma18g16280   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MDSSQSAALGGNGGSGGNGTLISQINDMAASATGADDSMQKLNQVSNSIQKTLGLIHQLYLTVSTFNAAFQMPLLQRINGLVAELDNMVKLAEKCNIQVPMEVVNLIDDGKNPDEFTKDVINSCIAKNQITKGKTDALKSLRKHLLEELEQNFPDEVETFRESRTAAAAELKRQAQSALPNGDVRVKSEH*

>Glyma18g16280.4   sequence type=predicted peptide   gene model=Glyma18g16280   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MDSSQSAALGGNGGSGGNGTLISQINDMAASATGADDSMQKLNQVSNSIQKTLGLIHQLYLTVSTFNAAFQMPLLQRINGLVAELDNMVKLAEKCNIQVPMEVVNLIDDGKNPDEFTKDVINSCIAKNQITKGKTDALKSLRKHLLEELEQNFPDEVETFRESRTAAAAELKRQAQSALPNGDVRVKSEH*

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