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Report for Sequence Feature Glyma04g00330

Feature Type:gene_model
Chromosome:Gm04
Start:133933
stop:139105
Source:JGI
Version:Wm82.a1.v1.1
High confidence:yes



A newer version of this gene model can be found here:

Annotations for Glyma04g00330
Database IDAnnotation TypeAnnotation DescriptionAnnotation SourceMatch ScoreEvidence Code
AT1G08540AT Annotation by Michelle Graham. TAIR10: RNApolymerase sigma subunit 2 | chr1:2703461-2706696 FORWARD LENGTH=572 SoyBaseE_val: 0ISS
GO:0006098GO-bp Annotation by Michelle Graham. GO Biological Process: pentose-phosphate shunt SoyBaseN/AISS
GO:0006352GO-bp Annotation by Michelle Graham. GO Biological Process: DNA-dependent transcription, initiation SoyBaseN/AISS
GO:0006355GO-bp Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent SoyBaseN/AISS
GO:0006364GO-bp Annotation by Michelle Graham. GO Biological Process: rRNA processing SoyBaseN/AISS
GO:0006399GO-bp Annotation by Michelle Graham. GO Biological Process: tRNA metabolic process SoyBaseN/AISS
GO:0009637GO-bp Annotation by Michelle Graham. GO Biological Process: response to blue light SoyBaseN/AISS
GO:0009658GO-bp Annotation by Michelle Graham. GO Biological Process: chloroplast organization SoyBaseN/AISS
GO:0009902GO-bp Annotation by Michelle Graham. GO Biological Process: chloroplast relocation SoyBaseN/AISS
GO:0010027GO-bp Annotation by Michelle Graham. GO Biological Process: thylakoid membrane organization SoyBaseN/AISS
GO:0010114GO-bp Annotation by Michelle Graham. GO Biological Process: response to red light SoyBaseN/AISS
GO:0010218GO-bp Annotation by Michelle Graham. GO Biological Process: response to far red light SoyBaseN/AISS
GO:0016117GO-bp Annotation by Michelle Graham. GO Biological Process: carotenoid biosynthetic process SoyBaseN/AISS
GO:0019288GO-bp Annotation by Michelle Graham. GO Biological Process: isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway SoyBaseN/AISS
GO:0034660GO-bp Annotation by Michelle Graham. GO Biological Process: ncRNA metabolic process SoyBaseN/AISS
GO:0071482GO-bp Annotation by Michelle Graham. GO Biological Process: cellular response to light stimulus SoyBaseN/AISS
GO:2001141GO-bp Annotation by Michelle Graham. GO Biological Process: regulation of RNA biosynthetic process SoyBaseN/AISS
GO:0009507GO-cc Annotation by Michelle Graham. GO Cellular Compartment: chloroplast SoyBaseN/AISS
GO:0003677GO-mf Annotation by Michelle Graham. GO Molecular Function: DNA binding SoyBaseN/AISS
GO:0003700GO-mf Annotation by Michelle Graham. GO Molecular Function: sequence-specific DNA binding transcription factor activity SoyBaseN/AISS
GO:0003899GO-mf Annotation by Michelle Graham. GO Molecular Function: DNA-directed RNA polymerase activity SoyBaseN/AISS
GO:0016987GO-mf Annotation by Michelle Graham. GO Molecular Function: sigma factor activity SoyBaseN/AISS
PF04539PFAM Sigma-70 region 3 JGI ISS
PF04542PFAM Sigma-70 region 2 JGI ISS
PF04545PFAM Sigma-70, region 4 JGI ISS
UniRef100_B9SDA3UniRef Annotation by Michelle Graham. Most informative UniRef hit: RNA polymerase sigma factor rpoD1, putative n=1 Tax=Ricinus communis RepID=B9SDA3_RICCO SoyBaseE_val: 0ISS
UniRef100_I1JSC1UniRef Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=2 Tax=Glycine max RepID=I1JSC1_SOYBN SoyBaseE_val: 0ISS

Expression Patterns of Glyma04g00330
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 Glyma04g00330
ParalogEvidenceComments
Glyma06g00391 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 Glyma04g00330 Gene Call Version Wm82.a1.v1.1
Corresponding NameAnnotation VersionEvidenceComments
Glyma.04g002000 Wm82.a2.v1IGC As supplied by JGI

References for Glyma04g00330
Schmutz et al. 2010
  Genome sequence of the palaeopolyploid soybean
  Nature 2010, 463:178-183

Coding sequences of Glyma04g00330
>Glyma04g00330.2   sequence type=CDS   gene model=Glyma04g00330   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGTCGTGTTTGTTGCCGCACTTCAACTGCCACCTCGACACTTTCAGGACTCATCCCTATGCTCTTCCTACCCATCTATCTAAAACAAGACCAAATTTGTGTTTCCAGCCGCAATGTGTGTTGTCTGCCACATCTCCTTCAACGCTGCTTAGTTTGGAAAAGAAGTTGGCATTAGATGCTCCTTCTGATCCGAACACTTCTTGGCCCTATATCGCTGCTGTTTCCCCTCCCTTACAGGCAAACTTTAAATCAACCTTATCTGCGGAATCACTTCTTACTAATGAAGAGGCTGTAATAGTTGCTGCTGCATCTGAAGCTCTTGCTCTTGCTAAAGCAGCCGCGAAGGTTGCAAAGGATGCAGCTTTACTAGTAAAAAAGAAGCCTCCTGCAGAAGCAGAGTATAAATCCCATGTTTCTTCCAAATCTGATGATTTACTTCTCAAATGGTTTAAACAAATGGAAGAAGTGGAAGATGGTGTAGCAGAAGAATCCATGGGTGCTGGAGCAGAAATAATGGAAGGTGTTGACGTAAGCCCCAGCGAAGAGGAATCCGATCTAGAGCCTTCCCATGAGGAACTTGAGCGTCTGCAGGAACAGCTTTCAGACAGTATAGCTGTAAGATCTAGGCGCCAAACAGAAAGAAAAGCTAAAAGAGTCAGAGCAACAGAGAAGGCTACCACAAATTTTACATCATTTAAGCCTGGCTCCTCCAGCAGGAGAAAGCGTGTTTCTATGCAAGAAGTAGATTATTCAGACCCACTTCGTTACTTAAGAACAACAACTAGCGCTTCTAGGCTTCTTACTCCAACCGAAGAAATTAAGTTGTCAGCAGGAATACAGGACCTTCTAAAGCTTGAAAAAATCCAGGAGGATCTTGCAGAAAGATTTGGCAGTCAGCCCACGTTTGCTCAATGGGCAGCAGTGGCAGGGGTAGATCAGAAAACACTTAGGAAACGTTTAAATTATGGTATATTTTGCAAAGACAAAATGATTAAAAGCAATATACGACTTGTCATATCCATTGCTAAGAATTATCAGGGATCTGGGATGAATCTGCAAGATCTTGTCCAGGAAGGATGCAGAGGCCTTGTAAAAGGTGCAGAGAAGTTTGATGGTACCAAGGGTTTTAAATTCTCTACCTATGCTCATTGGTGGATTAAACAGGCTGTTCGGAAATCACTTTCTGATCAGTCAAGAACTATTCGCTTGCCATTCCACATGGTGGAGGCGACTTACAGAGTGAAGGAGGCCAGAAAACAATTGTATAGTGAAAATGGAAGACAGCCTGATGATGAAGAAGTTGCTGAAGCAACTGGGTTGTCAATGAAGAGGCTTAATGCTGTACTTATGACCCCAAAAGCTCCCAGATCTCTGGAACAAAAGATTGGGATCAACCAGAATCTTAAACCCTCAGAAGTAATTTCCGATCCTGATGCCGAAACAGCTGAAGAACAGCTCCTTAAGCAGTTCATGAAGAAGGACCTGGAAGAGGCACTGGACAGTCTCAATCCAAGAGAGAGGCAGGTGGTAAGATGGAGATTTGGTATGGATGATGGAAGGACGAAGACCCTGCAAGAGATAGGGGAGATGTTGGGTGTGAGTAGGGAGAGAATTAGGCAAATCGAGTCAAGTGCTTTTAAGAAGCTTAAGAACAAGAAGAGAACCAATCATTTGCAGCAGTATTTGGTTTCATAA
Predicted protein sequences of Glyma04g00330
>Glyma04g00330.2   sequence type=predicted peptide   gene model=Glyma04g00330   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MSCLLPHFNCHLDTFRTHPYALPTHLSKTRPNLCFQPQCVLSATSPSTLLSLEKKLALDAPSDPNTSWPYIAAVSPPLQANFKSTLSAESLLTNEEAVIVAAASEALALAKAAAKVAKDAALLVKKKPPAEAEYKSHVSSKSDDLLLKWFKQMEEVEDGVAEESMGAGAEIMEGVDVSPSEEESDLEPSHEELERLQEQLSDSIAVRSRRQTERKAKRVRATEKATTNFTSFKPGSSSRRKRVSMQEVDYSDPLRYLRTTTSASRLLTPTEEIKLSAGIQDLLKLEKIQEDLAERFGSQPTFAQWAAVAGVDQKTLRKRLNYGIFCKDKMIKSNIRLVISIAKNYQGSGMNLQDLVQEGCRGLVKGAEKFDGTKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRQPDDEEVAEATGLSMKRLNAVLMTPKAPRSLEQKIGINQNLKPSEVISDPDAETAEEQLLKQFMKKDLEEALDSLNPRERQVVRWRFGMDDGRTKTLQEIGEMLGVSRERIRQIESSAFKKLKNKKRTNHLQQYLVS*






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