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Report for Sequence Feature Glyma04g06060

Feature Type:gene_model
Chromosome:Gm04
Start:4597237
stop:4617503
Source:JGI
Version:Wm82.a1.v1.1
High confidence:yes



A newer version of this gene model can be found here:

Annotations for Glyma04g06060
Database IDAnnotation TypeAnnotation DescriptionAnnotation SourceMatch ScoreEvidence Code
AT3G43920AT Annotation by Michelle Graham. TAIR10: dicer-like 3 | chr3:15753548-15760830 FORWARD LENGTH=1580 SoyBaseE_val: 0ISS
GO:0006306GO-bp Annotation by Michelle Graham. GO Biological Process: DNA methylation SoyBaseN/AISS
GO:0006342GO-bp Annotation by Michelle Graham. GO Biological Process: chromatin silencing SoyBaseN/AISS
GO:0006396GO-bp Annotation by Michelle Graham. GO Biological Process: RNA processing SoyBaseN/AISS
GO:0007267GO-bp Annotation by Michelle Graham. GO Biological Process: cell-cell signaling SoyBaseN/AISS
GO:0009616GO-bp Annotation by Michelle Graham. GO Biological Process: virus induced gene silencing SoyBaseN/AISS
GO:0009855GO-bp Annotation by Michelle Graham. GO Biological Process: determination of bilateral symmetry SoyBaseN/AISS
GO:0009887GO-bp Annotation by Michelle Graham. GO Biological Process: organ morphogenesis SoyBaseN/AISS
GO:0009944GO-bp Annotation by Michelle Graham. GO Biological Process: polarity specification of adaxial/abaxial axis SoyBaseN/AISS
GO:0010014GO-bp Annotation by Michelle Graham. GO Biological Process: meristem initiation SoyBaseN/AISS
GO:0010050GO-bp Annotation by Michelle Graham. GO Biological Process: vegetative phase change SoyBaseN/AISS
GO:0010051GO-bp Annotation by Michelle Graham. GO Biological Process: xylem and phloem pattern formation SoyBaseN/AISS
GO:0010073GO-bp Annotation by Michelle Graham. GO Biological Process: meristem maintenance SoyBaseN/AISS
GO:0010075GO-bp Annotation by Michelle Graham. GO Biological Process: regulation of meristem growth SoyBaseN/AISS
GO:0010216GO-bp Annotation by Michelle Graham. GO Biological Process: maintenance of DNA methylation SoyBaseN/AISS
GO:0010267GO-bp Annotation by Michelle Graham. GO Biological Process: production of ta-siRNAs involved in RNA interference SoyBaseN/AISS
GO:0016569GO-bp Annotation by Michelle Graham. GO Biological Process: covalent chromatin modification SoyBaseN/AISS
GO:0030422GO-bp Annotation by Michelle Graham. GO Biological Process: production of siRNA involved in RNA interference SoyBaseN/AISS
GO:0031047GO-bp Annotation by Michelle Graham. GO Biological Process: gene silencing by RNA SoyBaseN/AISS
GO:0035196GO-bp Annotation by Michelle Graham. GO Biological Process: production of miRNAs involved in gene silencing by miRNA SoyBaseN/AISS
GO:0048439GO-bp Annotation by Michelle Graham. GO Biological Process: flower morphogenesis SoyBaseN/AISS
GO:0048519GO-bp Annotation by Michelle Graham. GO Biological Process: negative regulation of biological process SoyBaseN/AISS
GO:0051607GO-bp Annotation by Michelle Graham. GO Biological Process: defense response to virus SoyBaseN/AISS
GO:0005634GO-cc Annotation by Michelle Graham. GO Cellular Compartment: nucleus SoyBaseN/AISS
GO:0005730GO-cc Annotation by Michelle Graham. GO Cellular Compartment: nucleolus SoyBaseN/AISS
GO:0003676GO-mf Annotation by Michelle Graham. GO Molecular Function: nucleic acid binding SoyBaseN/AISS
GO:0003723GO-mf Annotation by Michelle Graham. GO Molecular Function: RNA binding SoyBaseN/AISS
GO:0003725GO-mf Annotation by Michelle Graham. GO Molecular Function: double-stranded RNA binding SoyBaseN/AISS
GO:0004386GO-mf Annotation by Michelle Graham. GO Molecular Function: helicase activity SoyBaseN/AISS
GO:0004525GO-mf Annotation by Michelle Graham. GO Molecular Function: ribonuclease III activity SoyBaseN/AISS
GO:0005515GO-mf Annotation by Michelle Graham. GO Molecular Function: protein binding SoyBaseN/AISS
GO:0005524GO-mf Annotation by Michelle Graham. GO Molecular Function: ATP binding SoyBaseN/AISS
GO:0008026GO-mf Annotation by Michelle Graham. GO Molecular Function: ATP-dependent helicase activity SoyBaseN/AISS
KOG0701 KOG dsRNA-specific nuclease Dicer and related ribonucleases JGI ISS
PTHR14950Panther HELICASE-RELATED JGI ISS
PTHR14950:SF1Panther gb def: dead box helicase [caenorhabditis elegans] JGI ISS
PF00270PFAM DEAD/DEAH box helicase JGI ISS
PF00271PFAM Helicase conserved C-terminal domain JGI ISS
PF00636PFAM RNase3 domain JGI ISS
PF02170PFAM PAZ domain JGI ISS
PF03368PFAM Double stranded RNA binding domain JGI ISS
UniRef100_G7J946UniRef Annotation by Michelle Graham. Most informative UniRef hit: Endoribonuclease Dicer-like protein n=1 Tax=Medicago truncatula RepID=G7J946_MEDTR SoyBaseE_val: 0ISS
UniRef100_UPI0002339809UniRef Annotation by Michelle Graham. Best UniRef hit: UPI0002339809 related cluster n=1 Tax=unknown RepID=UPI0002339809 SoyBaseE_val: 0ISS

Expression Patterns of Glyma04g06060
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 Glyma04g06060
ParalogEvidenceComments
Glyma06g06061 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 Glyma04g06060 Gene Call Version Wm82.a1.v1.1
Corresponding NameAnnotation VersionEvidenceComments
Glyma.04g057400 Wm82.a2.v1IGC As supplied by JGI

References for Glyma04g06060
Schmutz et al. 2010
  Genome sequence of the palaeopolyploid soybean
  Nature 2010, 463:178-183

Coding sequences of Glyma04g06060
>Glyma04g06060.2   sequence type=CDS   gene model=Glyma04g06060   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGAATTCCAACATTGATTCAACAGACCATAGCCAGGATCAAAGCAGAAAACGAAACCTACCCGATGCTGATGATTCTCCGGCGCCGAATTTCCACATTGATTCATCAGACCATAACCAGGACCAAAGTAAAAAACGAAAGCAACCCAATGATGAAGATTCTCCATCGCTTGAATCGCCTTGTTCCAACATGAACCCCAGAAGGTATCAGATAGAGGTGTATGAAGTTGCAAGGAGAAGGAACACTATAGCTGTGTTGGATACAGGGTCAGGTAAGACCCTGATTGCTGTAATGCTTATGAAAGAGGTTGGTCAAGCCATCAAGACTAGTGGTGTAAAGAAGCTGATTATTTTCTTGGCTCCCACAGTTCATCTTGTCAATCAGCAATTCAAGAATATAAAATTTCTGACTGATTTTCAAGTTGAGGAATACTATGGGGCTAAAGGAGTTGATACATGGACTTTGAAGACGTGGGAGAAGGAGATTAGTAACAATGATGTTCTGGTTATGACACCCCAGATTCTTTTGGATGCGTTAAGAAAAGCATTCCTGCGTATGGAAATGATATGCTTGATTGTTATTGATGAATGTCATAGAACAATTGGCAATCATCCTTATACAAAAATAATGAAGGAATTTTATCACCAAGCTAATGAAAAGCCAAAGATTTTTGGGATGACAGCATCACCTGTTGGTAAAAAAGGTGTTTCCTCTACTATGGATTGTGAGGATCAGATATCAGAACTTGAAAGCATCTTGGATTCTCAGAGATATACTGTTGAAGATCGGACAGAGATGGATAGGTGTGTCCCATCTGCTAAAGAGAGTTGTAGATATTATGACCAAGCACGATTTTCTGCTTTGAGTTTGAAACCAAAGATTGAAGCCTTGTCGTTCAAGTTTGATGCATTGTTATCAGAAAATCAAAGTAACTATAAGGATGTGGAAAATAAATTTAAGACACTTTCTCAGCGGATGTCCAATGAACTTGCAAAAATTTTACATTGCCTTGAAGATCTTGGGATCCTATGTGCTTATGAGGCTGTTAAAATCTGTCATGAGAATTTTTCCAAATCTGAAGGAGAGTGTGAAATTTACAGAAAAGGTTATCTTCAATGTATAACTTTTCTTGAAGAAGTAATCAAATTAATCGAAGAATCCCTCCATCTTGCTGATAAAAAGATTTTGGAGGTTGATTTTAATTATTCTCAGGCAGAAGATTTGGGATACATATCTCCCAAATTAATTGAACTTATTAAACTCTTTCAGTCATTTGGAGAATCTAGTCAGGTGTTGTGCCTTATTTTTGTTGATAGAATCATTACCGCAAAGGTGATCCAAAGATTCGCAAAGACAGTTCCCAATATTTCTCATTTCACAGTTTCCTATTTAACTGGTAACAATACATCGGTTGATGCTCTGGCTCCTAAGAGGCAGAAGGAGATATTGGATTCTTTCCGCTCTGGAAAGGTCAATCTATTATTTACTACTGATGTACTTGAGGAAGGAATTCATGTGCCAAACTGCTCATGTGTGATACGTTTTGACCTCCCAAAGACAGTTCGTAGTTATGTCCAATCTCGTGGAAGATCTAGGCAGGCAAACTCCCAATTTGTTGTGATGTTGGAGAGGGGAAACTTGAAGCAAAGAGATCAACTCTTTGATATCATTAGGAGTGAGCGGTCCATGACTGATGCATCTATTTATAAAGAACATGAATCTAGTTTAAGGGCATGTATGGTGGGGAAAACAAATGCATACTATGTGGAATCCACTGGAGCATCTTTCACTTTAGATTCTAGTGTTAGTCTCATCCACCGATACTGTGGAACACTCCCTCGAGATAAGTACTCCTGTGTAAAGCCCAATTTTGAGTTTCTGTCTGTGGAAGGGGGTTATCAGTGTAAATTAATATTACCATCTAATTCAGCTTTCCAAACAATAATTGGTCCTTCTGGAAAAGATATGCGTTTGGCAAAGCATCTTGCATGTTTCGAAGCTTGTAAGAAGCTGCATCAAATGGGTGCCTTAAATGAACATTTGGTTCCATTAATTGAAGATTCTTCAGAAGATGACCATATTGTGAAAAATAAAGAATCAAGTTCTGGTGCAGGGACCACAAAAAGAAAGGAGTTACATGGAAAAGCTAACATTCATGCATTAAGTGGTGCATGGGGAGACAAACTCACTAGAGTCAAATTTAATGCGTATAAATTTGAATTCACATGTAATATTGTAAGTGAAATATACTCTGGGTTTGCTCTTTTGATTGAGTCAGAGCTTGATGAGGATGTGGGAAATGTAAATTTAGATCTTTATTTAGTCTCAAAGATTGTGAAAGCTTCCGTCTCTTCATGTGGGCAAGTTGATTTGGATGCTGAACAGATGATGAGAGCAAAATGCTTCCATGAGCTTTTTTTCAATGGTTTGTTTGGGAGACTGGTCTTGAAGTCCAAATCAGCAGGAGAAAGGGAATTTTTACTTCAGAAAGACACAAACTCATTGTGGAGCCCAAAACACTTGTATTTGCTTCTACCACTAGAGAAATTGAATGATATCTGTGAGGGATCTTTGCAAATTAATTGGTGTGGAATTAATTCTTGTGCTTCTGCTATCAAATTTTTAAGGAGGAAATTTTCTTTGGTCACTGGAGATTGTGATGATAACGGCACAATCACATCACCTCATGATACCAGTTCATCAGAGATGGAATGTGTAGGAGCAAACAAGATTCACTTTGCTAATTGTGTGGTTGATGCTGATAATATAAAAGACAGGGTAGTTTTGGCCATTCACACTGGGAAAATATATTGTATTATTGAGATCGACAGTAACCTATCTGCTGAAAGTCCTTTCTATGGAAACAATGAAAAATCAAAGGAAAGCATTACCTTCTCGGATTATTTCAGCAAAAGTTATGGAATTTCACTGAGACATCCTGGACAGCCTATGTTACGGTTGAAGCAAAGTCATAATCCACACAATCTTCTTTTCAACTTCTATGAGGAAGATGCACGAGACAAGTCATCAAAAATTGGCCCTGCAGCCTCAAAATTGCCAGTGCATGTTCATATTCCTCCCGAGCTTCTATACATTCTTGATGTTAAAAGAGATGTGTTGAAATCACTGTACTTGCTGCCATCTCTGATGTACCGCATTGAATCTTTGATGTTATCTAGTCAGCTTAGAGAAGAGATAGATGGTCAAACTAGCAAGTTCAACATACGTAGCTCACTGATTCTAGAATCACTTACAACTTTGAGATGTAGTGAAAGTTTTTCAATGGAACGTCTTGAGTTGCTAGGAGATTCTGTTTTGAAGTATGTGGTGAGTTGTCACCTCTTTCTTAAATATCCTAAAAAACACGAAGGACAATTATCTGCCAGACGATCATCGGCTGTTTGTAACTCAACCCTACATAAACTGGGGACAGATCGCAAATTACAGGGATATATTCGAGACTCTGCTTTTGAACCACGCCGTTGGGTTGCTCCAGGACAGCGTTCTATACACCTTGTTTGTTGTGATTGTGGGTTGGAAACCCTTGAAGTGCCTTTAGATGCAAAATTCCATACTGAAGATCCAAAAGTTGTGGTTGGGAAGTTTTGCGACAGAGGTCACTGCTGGATGTGTTCTAAGACTATTGCTGACTGTGTTGAAGCTCTGATAGGAGCATACTATGTAGATGGTGGACTTTTTGCTTCACTTAATGTGATGAAATGGCTTGGGATTGGTGCTGAACTTGAACTATCATTGGTTGATGAAGCAATCACTGCTGCATCTCTGCGTACATGTTTGCCAAAAGAAAGTGAGATTGCAAGCCTTGAAAAGAAAATTGGGTATGAATTTTCGGTCAAGGGACTCTTACTGGAGGCAATCACACATTTGTCTGAGAAAGAACTTGGGATTGGCTGCTGTTATGAGAGGCTTGAATTTCTAGGTGACTCGGTATTGGACCTGCTTATCACATGGCATCTTTATCAGAGTCACACAGATATTGATCCAGGGGTGTTGACTGACTTACGTTCTGCTTCTGTCAATAATGACAATTTTGCTCAAGTTGCTGTTAGACATAACCTTCACCAGCACCTTCTACATAGCTCAGGATTATTACTGAGCCAGATATCAGAATATGTGAAGGTCATTTCTGAATCAGATCCCAGATCACTTCCAAGTATTAGTGCTCCCAAGGCACTTGGAGATGTAGTGGAAAGTATAGTTGGGGCTATACTAATTGATACCAAGCTCAGTCTTGACCAAGTGTGGAACGTTTTCTATTCTCTATTATCTCCCATTGTTACTCCTGATAAACTTGAATTGCCTCCATTTCGTGAATTAAATGAATTATGTGATTCGCTCGGTTATTTTGTAAAAGTAAAAGAAAATTGTGAAAAAGTGGGATCAGCAATGCATGTTGAGGTTAGTGTACAACTTCCAAATGCCCTATTGGTTCGTGAAGGAAAGGGGGCAAATAAAAAAACTGCAAAAGGAGAAGCTGCTTTTTATTTGTTGAAGGATCTTGAGAAGCAGGGAATTTCACATGGTAGTTTCATGTCCAAGGGAAAAAGAGATAATCCTGACCATGTCTATGGTTCATCTCATCTCAAAATGGATTCTAGTATTCTAATTGAAGAACATTCCTCAGAGCCAGCATCACATAAAAGGCACATATTGGATGAAACTAACTTAACTGCAATTAATTTATCAATTAATATGAAGAAGGGAGGACCGCGGACCACATTATATGAAGTATGTAAGAAATTACAGTGGCCAGTGCCTACATTTGATTCAACAGAATATAAAGATAGATCTCTATTTGAATCCTGTGAGGGGCTGCAAGGAAGCAAGGGACAGAACTGCTTTGTGTCGAAAATTACCTTGTGCATACCCAATTATGGTAATATAGAAAGCAAAGGAGAAGCTAGAAGTGATAAGAAGACCTCCTTTGACTCTGCTGCAGTTCAAATGCTTCTTGAGCTGCAAAGACTGGGAAAAGTTGAAATTGATCCTCTCCCTTCTAGTTAG
Predicted protein sequences of Glyma04g06060
>Glyma04g06060.2   sequence type=predicted peptide   gene model=Glyma04g06060   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MNSNIDSTDHSQDQSRKRNLPDADDSPAPNFHIDSSDHNQDQSKKRKQPNDEDSPSLESPCSNMNPRRYQIEVYEVARRRNTIAVLDTGSGKTLIAVMLMKEVGQAIKTSGVKKLIIFLAPTVHLVNQQFKNIKFLTDFQVEEYYGAKGVDTWTLKTWEKEISNNDVLVMTPQILLDALRKAFLRMEMICLIVIDECHRTIGNHPYTKIMKEFYHQANEKPKIFGMTASPVGKKGVSSTMDCEDQISELESILDSQRYTVEDRTEMDRCVPSAKESCRYYDQARFSALSLKPKIEALSFKFDALLSENQSNYKDVENKFKTLSQRMSNELAKILHCLEDLGILCAYEAVKICHENFSKSEGECEIYRKGYLQCITFLEEVIKLIEESLHLADKKILEVDFNYSQAEDLGYISPKLIELIKLFQSFGESSQVLCLIFVDRIITAKVIQRFAKTVPNISHFTVSYLTGNNTSVDALAPKRQKEILDSFRSGKVNLLFTTDVLEEGIHVPNCSCVIRFDLPKTVRSYVQSRGRSRQANSQFVVMLERGNLKQRDQLFDIIRSERSMTDASIYKEHESSLRACMVGKTNAYYVESTGASFTLDSSVSLIHRYCGTLPRDKYSCVKPNFEFLSVEGGYQCKLILPSNSAFQTIIGPSGKDMRLAKHLACFEACKKLHQMGALNEHLVPLIEDSSEDDHIVKNKESSSGAGTTKRKELHGKANIHALSGAWGDKLTRVKFNAYKFEFTCNIVSEIYSGFALLIESELDEDVGNVNLDLYLVSKIVKASVSSCGQVDLDAEQMMRAKCFHELFFNGLFGRLVLKSKSAGEREFLLQKDTNSLWSPKHLYLLLPLEKLNDICEGSLQINWCGINSCASAIKFLRRKFSLVTGDCDDNGTITSPHDTSSSEMECVGANKIHFANCVVDADNIKDRVVLAIHTGKIYCIIEIDSNLSAESPFYGNNEKSKESITFSDYFSKSYGISLRHPGQPMLRLKQSHNPHNLLFNFYEEDARDKSSKIGPAASKLPVHVHIPPELLYILDVKRDVLKSLYLLPSLMYRIESLMLSSQLREEIDGQTSKFNIRSSLILESLTTLRCSESFSMERLELLGDSVLKYVVSCHLFLKYPKKHEGQLSARRSSAVCNSTLHKLGTDRKLQGYIRDSAFEPRRWVAPGQRSIHLVCCDCGLETLEVPLDAKFHTEDPKVVVGKFCDRGHCWMCSKTIADCVEALIGAYYVDGGLFASLNVMKWLGIGAELELSLVDEAITAASLRTCLPKESEIASLEKKIGYEFSVKGLLLEAITHLSEKELGIGCCYERLEFLGDSVLDLLITWHLYQSHTDIDPGVLTDLRSASVNNDNFAQVAVRHNLHQHLLHSSGLLLSQISEYVKVISESDPRSLPSISAPKALGDVVESIVGAILIDTKLSLDQVWNVFYSLLSPIVTPDKLELPPFRELNELCDSLGYFVKVKENCEKVGSAMHVEVSVQLPNALLVREGKGANKKTAKGEAAFYLLKDLEKQGISHGSFMSKGKRDNPDHVYGSSHLKMDSSILIEEHSSEPASHKRHILDETNLTAINLSINMKKGGPRTTLYEVCKKLQWPVPTFDSTEYKDRSLFESCEGLQGSKGQNCFVSKITLCIPNYGNIESKGEARSDKKTSFDSAAVQMLLELQRLGKVEIDPLPSS*






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