Glyma04g02000 - SoyBase

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

Report for Sequence Feature Glyma04g02000

Feature Type:	gene_model
Chromosome:	Gm04
Start:	1373706
stop:	1377926
Source:	JGI
Version:	Wm82.a1.v1.1
High confidence:	yes

A newer version of this gene model can be found here:

Annotations for Glyma04g02000

Database ID	Annotation Type	Annotation Description	Annotation Source	Match Score	Evidence Code
AT1G63610	AT	Annotation by Michelle Graham. TAIR10: unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT2G14910.1); Has 537 Blast hits to 411 proteins in 100 species: Archae - 0; Bacteria - 231; Metazoa - 0; Fungi - 0; Plants - 94; Viruses - 0; Other Eukaryotes - 212 (source: NCBI BLink). \| chr1:23583675-23585599 REVERSE LENGTH=340	SoyBase	E_val: 1.00E-151	ISS
GO:0008150	GO-bp	Annotation by Michelle Graham. GO Biological Process: biological process	SoyBase	N/A	ISS
GO:0010207	GO-bp	Annotation by Michelle Graham. GO Biological Process: photosystem II assembly	SoyBase	N/A	ISS
GO:0009507	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast	SoyBase	N/A	ISS
GO:0009570	GO-cc	Annotation by Michelle Graham. GO Cellular Compartment: chloroplast stroma	SoyBase	N/A	ISS
GO:0003674	GO-mf	Annotation by Michelle Graham. GO Molecular Function: molecular function	SoyBase	N/A	ISS
UniRef100_C6TGY6	UniRef	Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=C6TGY6_SOYBN	SoyBase	E_val: 0	ISS
UniRef100_Q9SH45	UniRef	Annotation by Michelle Graham. Most informative UniRef hit: F2K11.3 n=1 Tax=Arabidopsis thaliana RepID=Q9SH45_ARATH	SoyBase	E_val: 3.00E-52	ISS

Expression Patterns of Glyma04g02000

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 Glyma04g02000

Paralog	Evidence	Comments
Glyma06g02100	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 Glyma04g02000 Gene Call Version Wm82.a1.v1.1

Corresponding Name	Annotation Version	Evidence	Comments
Glyma.04g018200	Wm82.a2.v1	IGC	As supplied by JGI

References for Glyma04g02000

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

Transcripts of Glyma04g02000

Limit To All Plant Sequences

>Glyma04g02000.2   sequence type=transcript   gene model=Glyma04g02000   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
TCGAGTTTGTTGGTGAGTTATATTTATGTATGTAATTTCGATCCAAAAGTAGATTTAAAATAGAAATTATTGGTATCGGTACGTGGCAGGTGCAAAATCACGTGTGAACCTCATCCCTGTGAATGCCGCTCCACTTCCAAGGCAAACTCTGAAACCTCTCTGGTTCTCTGTGACAGCGGAACAAATTATATGATCATGTATTCGTTGACACTGAAACCCTTCTTCACTCCTCAATTAGTTTCTTCGTCTTCTTCAACTTCCACTTCGTCCTCTTCGATTTCTCTCGTGTCCTTCCCATCTCGTTCGGTCTCATCAATTAGCTTTCCCAGAAATTTAAAGCACAAAGGAAGATTTGGTCTCAGAGTTGAAGCATACGATTCCTCCAATAATGACACTTCCAACCCTGCCAGTGCTGGCGGCGACTCCAAACCCCCTAATGGCACTTTGTCAAAGAGCAGGAGAGAAATTTTACTGGAATATGTTAAGAATGTGCAGCCAGAATTTATGGAATTGTTTGTGAAAAGAGCGCCACAACAGGTTGTGGATGCAATGCGACAAACAGTGACAAATATGATTGGAACACTGCCCCCTCAATTTTTTGCTGTAACAATTACCACTGTAGCTGAAAACCTTGCACAACTCATGTACAGTATCATGATGACTGGATACATGTTCAAGAATGCACAATATCGTTTGGAATTGCAAGAAGGTTTGGAACAAGTTGTTGCTCTTCCGGATGTGCAAGATAAAAAGGATGTGCCAGACTATGCACCTGGCACACAAAAGAATGTTTCAGGTGAAGTTATTCGGTGGAACAATGTTTCTGGGCCTGAGAAAATAGATGCTAAAAAGTACATTGAATTACTTGAAGCGGAGATTGAGGAGCTGAATCGTCAAGTTGGGAGACAATCTAGCAATGGACAAAATGAACTGTTGGAATACCTAAAATCTCTCGAACCTCGAAATTTGAAGTTGACCAGTAGTGCTGGCGAGGATGTAGTGTTTGCGATGAATACATTTATAAAGCGCCTGCTGGCTGTTTCGGATCCTAGCCAAATGAAGACTAGCGTGACCGAGACTAGTGCAGCTGAACTTGCGAAGCTGCTTTATTGGTTGATGGTGGTTGGGTACAGCATACGCAATATTGAAGTTCGTTATGACATGGAAAGAGTACTTGGCACCCCTCCAAAGCTAGCTGAATTGCCGCCAGGTGAAAATGTTTAAGCAGTCTGGAGTAAAGTAGTTCAACAAAGTACTGGTGTCTCTTAGTTGAAGCCAAGTGCCCTAATTAGATTTTGCACTTTTTTTGTTGATTGGCTGAAAGGCCAGTCATGAGCTCAAAGAGAAGTCTGCATTTTTCAGCGGCCATGAACGATTGATCTCTTAATATTATTAATATATTTGATGAAACTTTTATTCACAATTATACTGACAAAGATATCAAGGTCGATTCCCTGAAGATGTGCTATGCTTTTATATTACTTCTTTGACAGCCTGAACTGTGGTGATTTTTTTTAAAGGCGGCAGTTATTGTTGGTTCATTTTACAGTTTTTTCATATTCATTTTTAAATTGTTATATTTTCTAACTTAATTTTTTAATTTGTTATTGTTTTATTTATTTTTAATTCTATC

>Glyma04g02000.3   sequence type=transcript   gene model=Glyma04g02000   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
TCGAGTTTGTTGGTGAGTTATATTTATGTATGTAATTTCGATCCAAAAGTAGATTTAAAATAGAAATTATTGGTATCGGTACGTGGCAGGTGCAAAATCACGTGTGAACCTCATCCCTGTGAATGCCGCTCCACTTCCAAGGCAAACTCTGAAACCTCTCTGGTTCTCTGTGACAGCGGAACAAATTATATGATCATGTATTCGTTGACACTGAAACCCTTCTTCACTCCTCAATTAGTTTCTTCGTCTTCTTCAACTTCCACTTCGTCCTCTTCGATTTCTCTCGTGTCCTTCCCATCTCGTTCGGTCTCATCAATTAGCTTTCCCAGAAATTTAAAGCACAAAGGAAGATTTGGTCTCAGAGTTGAAGCATACGATTCCTCCAATAATGACACTTCCAACCCTGCCAGTGCTGGCGGCGACTCCAAACCCCCTAATGGCACTTTGTCAAAGAGCAGGAGAGAAATTTTACTGGAATATGTTAAGAATGTGCAGCCAGAATTTATGGAATTGTTTGTGAAAAGAGCGCCACAACAGGTTGTGGATGCAATGCGACAAACAGTGACAAATATGATTGGAACACTGCCCCCTCAATTTTTTGCTGTAACAATTACCACTGTAGCTGAAAACCTTGCACAACTCATGTACAGTATCATGATGACTGGATACATGTTCAAGAATGCACAATATCGTTTGGAATTGCAAGAAGGTTTGGAACAAGTTGTTGCTCTTCCGGATGTGCAAGATAAAAAGGATGTGCCAGACTATGCACCTGGCACACAAAAGAATGTTTCAGGTGAAGTTATTCGGTGGAACAATGTTTCTGGGCCTGAGAAAATAGATGCTAAAAAGTACATTGAATTACTTGAAGCGGAGATTGAGGAGCTGAATCGTCAAGTTGGGAGACAATCTAGCAATGGACAAAATGAACTGTTGGAATACCTAAAATCTCTCGAACCTCGAAATTTGAAGTGCTGGCGAGGATGTAGTGTTTGCGATGAATACATTTATAAAGCGCCTGCTGGCTGTTTCGGATCCTAGCCAAATGAAGACTAGCGTGACCGAGACTAGTGCAGCTGAACTTGCGAAGCTGCTTTATTGGTTGATGGTGGTTGGGTACAGCATACGCAATATTGAAGTTCGTTATGACATGGAAAGAGTACTTGGCACCCCTCCAAAGCTAGCTGAATTGCCGCCAGGTGAAAATGTTTAAGCAGTCTGGAGTAAAGTAGTTCAACAAAGTACTGGTGTCTCTTAGTTGAAGCCAAGTGCCCTAATTAGATTTTGCACTTTTTTTGTTGATTGGCTGAAAGGCCAGTCATGAGCTCAAAGAGAAGTCTGCATTTTTCAGCGGCCATGAACGATTGATCTCTTAATATTATTAATATATTTGATGAAACTTTTATTCACAATTATACTGACAAAGATATCAAGGTCGATTCCCTGAAGATGTGCTATGCTTTTATATTACTTCTTTGACAGCCTGAACTGTGGTGATTTTTTTTAAAGGCGGCAGTTATTGTTGGTTCATTTTACAGTTTTTTCATATTCATTTTTAAATTGTTATATTTTCTAACTTAATTTTTTAATTTGTTATTGTTTTATTTATTTTTAATTCTATC

Coding sequences of Glyma04g02000

Limit To All Plant Sequences

>Glyma04g02000.1   sequence type=CDS   gene model=Glyma04g02000   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGATCATGTATTCGTTGACACTGAAACCCTTCTTCACTCCTCAATTAGTTTCTTCGTCTTCTTCAACTTCCACTTCGTCCTCTTCGATTTCTCTCGTGTCCTTCCCATCTCGTTCGGTCTCATCAATTAGCTTTCCCAGAAATTTAAAGCACAAAGGAAGATTTGGTCTCAGAGTTGAAGCATACGATTCCTCCAATAATGACACTTCCAACCCTGCCAGTGCTGGCGGCGACTCCAAACCCCCTAATGGCACTTTGTCAAAGAGCAGGAGAGAAATTTTACTGGAATATGTTAAGAATGTGCAGCCAGAATTTATGGAATTGTTTGTGAAAAGAGCGCCACAACAGGTTGTGGATGCAATGCGACAAACAGTGACAAATATGATTGGAACACTGCCCCCTCAATTTTTTGCTGTAACAATTACCACTGTAGCTGAAAACCTTGCACAACTCATGTACAGTATCATGATGACTGGATACATGTTCAAGAATGCACAATATCGTTTGGAATTGCAAGAAGGTTTGGAACAAGTTGTTGCTCTTCCGGATGTGCAAGATAAAAAGGATGTGCCAGACTATGCACCTGGCACACAAAAGAATGTTTCAGGTGAAGTTATTCGGTGGAACAATGTTTCTGGGCCTGAGAAAATAGATGCTAAAAAGTACATTGAATTACTTGAAGCGGAGATTGAGGAGCTGAATCGTCAAGTTGGGAGACAATCTAGCAATGGACAAAATGAACTGTTGGAATACCTAAAATCTCTCGAACCTCGAAATTTGAAGGAGTTGACCAGTAGTGCTGGCGAGGATGTAGTGTTTGCGATGAATACATTTATAAAGCGCCTGCTGGCTGTTTCGGATCCTAGCCAAATGAAGACTAGCGTGACCGAGACTAGTGCAGCTGAACTTGCGAAGCTGCTTTATTGGTTGATGGTGGTTGGGTACAGCATACGCAATATTGAAGTTCGTTATGACATGGAAAGAGTACTTGGCACCCCTCCAAAGCTAGCTGAATTGCCGCCAGGTGAAAATGTTTAA

>Glyma04g02000.2   sequence type=CDS   gene model=Glyma04g02000   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGATCATGTATTCGTTGACACTGAAACCCTTCTTCACTCCTCAATTAGTTTCTTCGTCTTCTTCAACTTCCACTTCGTCCTCTTCGATTTCTCTCGTGTCCTTCCCATCTCGTTCGGTCTCATCAATTAGCTTTCCCAGAAATTTAAAGCACAAAGGAAGATTTGGTCTCAGAGTTGAAGCATACGATTCCTCCAATAATGACACTTCCAACCCTGCCAGTGCTGGCGGCGACTCCAAACCCCCTAATGGCACTTTGTCAAAGAGCAGGAGAGAAATTTTACTGGAATATGTTAAGAATGTGCAGCCAGAATTTATGGAATTGTTTGTGAAAAGAGCGCCACAACAGGTTGTGGATGCAATGCGACAAACAGTGACAAATATGATTGGAACACTGCCCCCTCAATTTTTTGCTGTAACAATTACCACTGTAGCTGAAAACCTTGCACAACTCATGTACAGTATCATGATGACTGGATACATGTTCAAGAATGCACAATATCGTTTGGAATTGCAAGAAGGTTTGGAACAAGTTGTTGCTCTTCCGGATGTGCAAGATAAAAAGGATGTGCCAGACTATGCACCTGGCACACAAAAGAATGTTTCAGGTGAAGTTATTCGGTGGAACAATGTTTCTGGGCCTGAGAAAATAGATGCTAAAAAGTACATTGAATTACTTGAAGCGGAGATTGAGGAGCTGAATCGTCAAGTTGGGAGACAATCTAGCAATGGACAAAATGAACTGTTGGAATACCTAAAATCTCTCGAACCTCGAAATTTGAAGTTGACCAGTAGTGCTGGCGAGGATGTAGTGTTTGCGATGAATACATTTATAAAGCGCCTGCTGGCTGTTTCGGATCCTAGCCAAATGAAGACTAGCGTGACCGAGACTAGTGCAGCTGAACTTGCGAAGCTGCTTTATTGGTTGATGGTGGTTGGGTACAGCATACGCAATATTGAAGTTCGTTATGACATGGAAAGAGTACTTGGCACCCCTCCAAAGCTAGCTGAATTGCCGCCAGGTGAAAATGTTTAA

>Glyma04g02000.3   sequence type=CDS   gene model=Glyma04g02000   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGATCATGTATTCGTTGACACTGAAACCCTTCTTCACTCCTCAATTAGTTTCTTCGTCTTCTTCAACTTCCACTTCGTCCTCTTCGATTTCTCTCGTGTCCTTCCCATCTCGTTCGGTCTCATCAATTAGCTTTCCCAGAAATTTAAAGCACAAAGGAAGATTTGGTCTCAGAGTTGAAGCATACGATTCCTCCAATAATGACACTTCCAACCCTGCCAGTGCTGGCGGCGACTCCAAACCCCCTAATGGCACTTTGTCAAAGAGCAGGAGAGAAATTTTACTGGAATATGTTAAGAATGTGCAGCCAGAATTTATGGAATTGTTTGTGAAAAGAGCGCCACAACAGGTTGTGGATGCAATGCGACAAACAGTGACAAATATGATTGGAACACTGCCCCCTCAATTTTTTGCTGTAACAATTACCACTGTAGCTGAAAACCTTGCACAACTCATGTACAGTATCATGATGACTGGATACATGTTCAAGAATGCACAATATCGTTTGGAATTGCAAGAAGGTTTGGAACAAGTTGTTGCTCTTCCGGATGTGCAAGATAAAAAGGATGTGCCAGACTATGCACCTGGCACACAAAAGAATGTTTCAGGTGAAGTTATTCGGTGGAACAATGTTTCTGGGCCTGAGAAAATAGATGCTAAAAAGTACATTGAATTACTTGAAGCGGAGATTGAGGAGCTGAATCGTCAAGTTGGGAGACAATCTAGCAATGGACAAAATGAACTGTTGGAATACCTAAAATCTCTCGAACCTCGAAATTTGAAGTGCTGGCGAGGATGTAGTGTTTGCGATGAATACATTTATAAAGCGCCTGCTGGCTGTTTCGGATCCTAG

Predicted protein sequences of Glyma04g02000

Limit To All Plant Sequences

>Glyma04g02000.1   sequence type=predicted peptide   gene model=Glyma04g02000   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MIMYSLTLKPFFTPQLVSSSSSTSTSSSSISLVSFPSRSVSSISFPRNLKHKGRFGLRVEAYDSSNNDTSNPASAGGDSKPPNGTLSKSRREILLEYVKNVQPEFMELFVKRAPQQVVDAMRQTVTNMIGTLPPQFFAVTITTVAENLAQLMYSIMMTGYMFKNAQYRLELQEGLEQVVALPDVQDKKDVPDYAPGTQKNVSGEVIRWNNVSGPEKIDAKKYIELLEAEIEELNRQVGRQSSNGQNELLEYLKSLEPRNLKELTSSAGEDVVFAMNTFIKRLLAVSDPSQMKTSVTETSAAELAKLLYWLMVVGYSIRNIEVRYDMERVLGTPPKLAELPPGENV*

>Glyma04g02000.2   sequence type=predicted peptide   gene model=Glyma04g02000   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MIMYSLTLKPFFTPQLVSSSSSTSTSSSSISLVSFPSRSVSSISFPRNLKHKGRFGLRVEAYDSSNNDTSNPASAGGDSKPPNGTLSKSRREILLEYVKNVQPEFMELFVKRAPQQVVDAMRQTVTNMIGTLPPQFFAVTITTVAENLAQLMYSIMMTGYMFKNAQYRLELQEGLEQVVALPDVQDKKDVPDYAPGTQKNVSGEVIRWNNVSGPEKIDAKKYIELLEAEIEELNRQVGRQSSNGQNELLEYLKSLEPRNLKLTSSAGEDVVFAMNTFIKRLLAVSDPSQMKTSVTETSAAELAKLLYWLMVVGYSIRNIEVRYDMERVLGTPPKLAELPPGENV*

>Glyma04g02000.3   sequence type=predicted peptide   gene model=Glyma04g02000   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MIMYSLTLKPFFTPQLVSSSSSTSTSSSSISLVSFPSRSVSSISFPRNLKHKGRFGLRVEAYDSSNNDTSNPASAGGDSKPPNGTLSKSRREILLEYVKNVQPEFMELFVKRAPQQVVDAMRQTVTNMIGTLPPQFFAVTITTVAENLAQLMYSIMMTGYMFKNAQYRLELQEGLEQVVALPDVQDKKDVPDYAPGTQKNVSGEVIRWNNVSGPEKIDAKKYIELLEAEIEELNRQVGRQSSNGQNELLEYLKSLEPRNLKCWRGCSVCDEYIYKAPAGCFGS*

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