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Report for Sequence Feature Glyma03g40500

Feature Type:gene_model
Chromosome:Gm03
Start:46234522
stop:46246813
Source:JGI
Version:Wm82.a1.v1.1
High confidence:yes



A newer version of this gene model can be found here:

Annotations for Glyma03g40500
Database IDAnnotation TypeAnnotation DescriptionAnnotation SourceMatch ScoreEvidence Code
AT1G54490AT Annotation by Michelle Graham. TAIR10: exoribonuclease 4 | chr1:20350300-20356650 FORWARD LENGTH=947 SoyBaseE_val: 0ISS
GO:0000003GO-bp Annotation by Michelle Graham. GO Biological Process: reproduction SoyBaseN/AISS
GO:0000291GO-bp Annotation by Michelle Graham. GO Biological Process: nuclear-transcribed mRNA catabolic process, exonucleolytic SoyBaseN/AISS
GO:0000956GO-bp Annotation by Michelle Graham. GO Biological Process: nuclear-transcribed mRNA catabolic process SoyBaseN/AISS
GO:0006139GO-bp Annotation by Michelle Graham. GO Biological Process: nucleobase-containing compound metabolic process SoyBaseN/AISS
GO:0006306GO-bp Annotation by Michelle Graham. GO Biological Process: DNA methylation SoyBaseN/AISS
GO:0006325GO-bp Annotation by Michelle Graham. GO Biological Process: chromatin organization SoyBaseN/AISS
GO:0006342GO-bp Annotation by Michelle Graham. GO Biological Process: chromatin silencing SoyBaseN/AISS
GO:0006355GO-bp Annotation by Michelle Graham. GO Biological Process: regulation of transcription, DNA-dependent SoyBaseN/AISS
GO:0006486GO-bp Annotation by Michelle Graham. GO Biological Process: protein glycosylation SoyBaseN/AISS
GO:0006487GO-bp Annotation by Michelle Graham. GO Biological Process: protein N-linked glycosylation SoyBaseN/AISS
GO:0007131GO-bp Annotation by Michelle Graham. GO Biological Process: reciprocal meiotic recombination SoyBaseN/AISS
GO:0007155GO-bp Annotation by Michelle Graham. GO Biological Process: cell adhesion SoyBaseN/AISS
GO:0007267GO-bp Annotation by Michelle Graham. GO Biological Process: cell-cell signaling SoyBaseN/AISS
GO:0008284GO-bp Annotation by Michelle Graham. GO Biological Process: positive regulation of cell proliferation SoyBaseN/AISS
GO:0009616GO-bp Annotation by Michelle Graham. GO Biological Process: virus induced gene silencing SoyBaseN/AISS
GO:0009630GO-bp Annotation by Michelle Graham. GO Biological Process: gravitropism SoyBaseN/AISS
GO:0009723GO-bp Annotation by Michelle Graham. GO Biological Process: response to ethylene stimulus SoyBaseN/AISS
GO:0009826GO-bp Annotation by Michelle Graham. GO Biological Process: unidimensional cell growth SoyBaseN/AISS
GO:0009873GO-bp Annotation by Michelle Graham. GO Biological Process: ethylene mediated signaling pathway SoyBaseN/AISS
GO:0009961GO-bp Annotation by Michelle Graham. GO Biological Process: response to 1-Aminocyclopropane-1-carboxylic Acid SoyBaseN/AISS
GO:0010014GO-bp Annotation by Michelle Graham. GO Biological Process: meristem initiation SoyBaseN/AISS
GO:0010090GO-bp Annotation by Michelle Graham. GO Biological Process: trichome morphogenesis SoyBaseN/AISS
GO:0010267GO-bp Annotation by Michelle Graham. GO Biological Process: production of ta-siRNAs involved in RNA interference SoyBaseN/AISS
GO:0010413GO-bp Annotation by Michelle Graham. GO Biological Process: glucuronoxylan metabolic process SoyBaseN/AISS
GO:0010587GO-bp Annotation by Michelle Graham. GO Biological Process: miRNA catabolic process SoyBaseN/AISS
GO:0010638GO-bp Annotation by Michelle Graham. GO Biological Process: positive regulation of organelle organization SoyBaseN/AISS
GO:0016049GO-bp Annotation by Michelle Graham. GO Biological Process: cell growth SoyBaseN/AISS
GO:0031087GO-bp Annotation by Michelle Graham. GO Biological Process: deadenylation-independent decapping of nuclear-transcribed mRNA SoyBaseN/AISS
GO:0033044GO-bp Annotation by Michelle Graham. GO Biological Process: regulation of chromosome organization SoyBaseN/AISS
GO:0035196GO-bp Annotation by Michelle Graham. GO Biological Process: production of miRNAs involved in gene silencing by miRNA SoyBaseN/AISS
GO:0040029GO-bp Annotation by Michelle Graham. GO Biological Process: regulation of gene expression, epigenetic SoyBaseN/AISS
GO:0043687GO-bp Annotation by Michelle Graham. GO Biological Process: post-translational protein modification SoyBaseN/AISS
GO:0045010GO-bp Annotation by Michelle Graham. GO Biological Process: actin nucleation SoyBaseN/AISS
GO:0045492GO-bp Annotation by Michelle Graham. GO Biological Process: xylan biosynthetic process SoyBaseN/AISS
GO:0045595GO-bp Annotation by Michelle Graham. GO Biological Process: regulation of cell differentiation SoyBaseN/AISS
GO:0045893GO-bp Annotation by Michelle Graham. GO Biological Process: positive regulation of transcription, DNA-dependent SoyBaseN/AISS
GO:0048589GO-bp Annotation by Michelle Graham. GO Biological Process: developmental growth SoyBaseN/AISS
GO:0005622GO-cc Annotation by Michelle Graham. GO Cellular Compartment: intracellular SoyBaseN/AISS
GO:0005634GO-cc Annotation by Michelle Graham. GO Cellular Compartment: nucleus SoyBaseN/AISS
GO:0005829GO-cc Annotation by Michelle Graham. GO Cellular Compartment: cytosol SoyBaseN/AISS
GO:0003676GO-mf Annotation by Michelle Graham. GO Molecular Function: nucleic acid binding SoyBaseN/AISS
GO:0004527GO-mf Annotation by Michelle Graham. GO Molecular Function: exonuclease activity SoyBaseN/AISS
GO:0004534GO-mf Annotation by Michelle Graham. GO Molecular Function: 5'-3' exoribonuclease activity SoyBaseN/AISS
GO:0008270GO-mf Annotation by Michelle Graham. GO Molecular Function: zinc ion binding SoyBaseN/AISS
GO:0008409GO-mf Annotation by Michelle Graham. GO Molecular Function: 5'-3' exonuclease activity SoyBaseN/AISS
KOG2044 KOG 5'-3' exonuclease HKE1/RAT1 JGI ISS
PTHR12341Panther 5'->3' EXORIBONUCLEASE JGI ISS
PF00098PFAM Zinc knuckle JGI ISS
PF03159PFAM XRN 5'-3' exonuclease N-terminus JGI ISS
UniRef100_G7L0T7UniRef Annotation by Michelle Graham. Most informative UniRef hit: 5'-3' exoribonuclease n=1 Tax=Medicago truncatula RepID=G7L0T7_MEDTR SoyBaseE_val: 0ISS
UniRef100_UPI000233A4BFUniRef Annotation by Michelle Graham. Best UniRef hit: UPI000233A4BF related cluster n=1 Tax=unknown RepID=UPI000233A4BF SoyBaseE_val: 0ISS

Expression Patterns of Glyma03g40500
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 Glyma03g40500
ParalogEvidenceComments
Glyma19g43160 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 Glyma03g40500 Gene Call Version Wm82.a1.v1.1
Corresponding NameAnnotation VersionEvidenceComments
Glyma.03g245000 Wm82.a2.v1IGC As supplied by JGI

References for Glyma03g40500
Schmutz et al. 2010
  Genome sequence of the palaeopolyploid soybean
  Nature 2010, 463:178-183

Coding sequences of Glyma03g40500
>Glyma03g40500.1   sequence type=CDS   gene model=Glyma03g40500   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
ATGGGAGTTCCAGCGTTCTACCGGTGGCTCGCGGATCGGTACCCACTCTCGATCGCCGACGTCGTGGAGGAGGAGCCATCTGTCGGCTCCGGCGCCGTTGATGTGTCTAAACCTAATCCAAATGGCATGGAGTTCGACAACTTGTACTTGGACATGAACGGCATCATTCACCCCTGTTTTCACCCTGATGGCAAGTCAGCACCTACTACCTACGAAGATGTATTCAAATCAATCTTTGACTATATTGACCATATATTTTCATTGGTTCGCCCAAGGAAGCTTCTTTATCTTGCAATTGACGGTGTTGCACCAAGAGCCAAAATGAATCAGCAACGTTCACGGCGTTTTCGAGCCGCAAAAGATGCAGCTGAGAAAGACGCAGCTGAGGCTGAAGCTGAAATTGAAAGACTTAGGGAAGAATTTGAGGGTGAGATGAAACTCTTGTCTTCTAAAGTCAAGCCAGAGACTTATGACTCAAATGTCATTACCCCTGGCACTCCATTTATGGGAGTGCTGTCAGTGGCTCTTCAGTATTATATACAGACTAGATTGAACTACAACCCTGGCTGGCGGAATACAAAGGTTATACTTTCTGATTCAAATGTTCCTGGTGAGGGAGAACATAAAATAATGGATTACATACGATTACAGCGTAACCTTCCTGGGTTTAATCCAAATACTCGTCACTGTTTGTATGGATTGGATGCTGATTTGATTATGTTGTCCTTAGCCACACATGAGGTTCATTTCTCAATATTGAGGGAGGTAATCACTTTCCCTGGACAACAGGAGAAGTGTTTTCAGTGTGGCCAAGTTGGCCATTTTGCAGCTGAATGTCGTGGTAAGCCAGGTGAGAAAGCTGAGGACTGGAATCCAGTTGATGATACCCCAATTCACAAGAAGAAATATCAGTTTCTTAACATCTGGGTGCTGCGTGAATATTTGCAATATGAAATGGAGATTCCCAACCCTCCTTTTGAGATTGACTTTGAACGCATTGTGGATGATTTTGTATTTCTATGCTTCTTTGTTGGCAATGACTTTCTTCCACATATGCCAACATTAGAGATCCGTGAGGGGGCTGTAAATTTATTGATGCATATTTATAGAAAAGAATTCACCGCCATGGGTGGTTATCTTACTGAAGCGGGTGAGGTTTTCTTAGAGAGAGTAGAACATTTTATTCAGTCTGTTGCTGTTCATGAAGATCAAATATTTCTGAAACGAGTTCGGATTCAACAGGCTACAGAAATTAATGAAGAGATGAAAGCTAGGGCAAGAGGAGAGATGCCTGGAGAACCACGGGCATCAGTTTTGGACAAGGTTAAGTTAGGAGAGCCTGGATACAAGGAAAGGTATTATGCTGAAAAATTTGGTGCATTGGATCTGGAGAAGATTGAAAAAATCAAGAAAGATACAGTCTTAAAATATGTAGAAGGCCTTTGTTGGGTTTGTCGGTACTACTACCAGGGTGTCTGCTCATGGCAATGGTACTACCCATACCATTATGCTCCTTTTGCTTCTGATCTTAAAGATCTAGCTGATCTGGAGATAACTTTTTTTTTGGGAGAACCATTTAAACCATTTGATCAGCTAATGGGGACCCTACCCGCTTCAAGTTCAAGTGCACTTCCTGAAAAATATAGGGATTTGATGATTGATCCTTCATCACCTATTCTTCAATTCTACCCTGCTGATTTTGAGATTGATATGAATGGAAAACGATTTGCATGGCAGGGTGTTGCCAAGTTGCCATTCATTGATGAGAAGAAATTGCTTTCTGCCACAAGCAAGCTTGAAGCCACATTAACGGAGGAAGAACAGCTCCGAAATAGCAAGATGCTTGATTTGCTTTATGTCAGCAGTGCGCATAATTTGGCTCCACATATCTTATCATATCATCAATATTCTTGTCAATTGCCTCTACATGAAAGACCTGCTCTACCAATTGACCCAAGAGCTAGTGATGGTATGAATGGATATCTCTGGTTGTACGAAAGGAATGTGCTCAGAACCACTGTATCTTCTCCCATCAAGGGATTGCAAGACATTGAGTTTAATCAAGTTTTAAATATTACTTATCTCAATCCTCGTAAACATAGACATATTCCAAAACCTCCGGATGGTGTACTAATGCCAAAAAAGATATTAAAAGCCATTGACATTAAACCTTTTCCTGTGTTATGGCACGAAGACAATAGTGGTCGGCGACAAGGCAGGGAAAGACAACAAGTACATGGAGCAATGGCTGGCCCTCAACTGGGAGAAGCAGCACATCGTCTTGTCAAGAACTCCCTTAATATTAAATCAAATAACATGCCGTATGGATCACCGGAGCAGTTTCCAGGCCATCATGCAATGAACCGGCTCAGATCAGCTGGACCTTCTGGATCTGGGAAATATTATGGTGAGGACACAAGCGGTTATTACGGACAACATTACAATCACCAGGGGATAATAACTAGGCCTAGATATCCAGTCTCATCTAATGGTGGACATAATGACAAACAGAATTTTAGGATACAGGATAGGTCATATCATCATGATCAATACTACAACGGGACAACTGGGTTTTATACCATGGCAATGGAGGAAGGTGCAAGAGCTAGGCCATATGCAGTGCCTTTGCCAAGGACACCTGCAGTGACGTTATCGAGGCCTCCCAATTCAGGGTCAACAACTAATGGACAACACCAATTTGTGCAGAACATGGGTCCTCCTATACCACCTCCAAATTGGATTACTAGAGTACCGGATACGAATGGAATATATGCTGGGCATCAAGAAACTGCATTGGGGGGAACTTATGATAAGCAGAACATGAAGGTGTACCAAGTTAAAACTCGTCAACCCCAAGATATGCCAGAGTACGGGAATCAATGA
Predicted protein sequences of Glyma03g40500
>Glyma03g40500.1   sequence type=predicted peptide   gene model=Glyma03g40500   sequence assembly version=Glyma 1.0   annotation version=1.1   JGI Gene Call confidence=high
MGVPAFYRWLADRYPLSIADVVEEEPSVGSGAVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKSAPTTYEDVFKSIFDYIDHIFSLVRPRKLLYLAIDGVAPRAKMNQQRSRRFRAAKDAAEKDAAEAEAEIERLREEFEGEMKLLSSKVKPETYDSNVITPGTPFMGVLSVALQYYIQTRLNYNPGWRNTKVILSDSNVPGEGEHKIMDYIRLQRNLPGFNPNTRHCLYGLDADLIMLSLATHEVHFSILREVITFPGQQEKCFQCGQVGHFAAECRGKPGEKAEDWNPVDDTPIHKKKYQFLNIWVLREYLQYEMEIPNPPFEIDFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAVNLLMHIYRKEFTAMGGYLTEAGEVFLERVEHFIQSVAVHEDQIFLKRVRIQQATEINEEMKARARGEMPGEPRASVLDKVKLGEPGYKERYYAEKFGALDLEKIEKIKKDTVLKYVEGLCWVCRYYYQGVCSWQWYYPYHYAPFASDLKDLADLEITFFLGEPFKPFDQLMGTLPASSSSALPEKYRDLMIDPSSPILQFYPADFEIDMNGKRFAWQGVAKLPFIDEKKLLSATSKLEATLTEEEQLRNSKMLDLLYVSSAHNLAPHILSYHQYSCQLPLHERPALPIDPRASDGMNGYLWLYERNVLRTTVSSPIKGLQDIEFNQVLNITYLNPRKHRHIPKPPDGVLMPKKILKAIDIKPFPVLWHEDNSGRRQGRERQQVHGAMAGPQLGEAAHRLVKNSLNIKSNNMPYGSPEQFPGHHAMNRLRSAGPSGSGKYYGEDTSGYYGQHYNHQGIITRPRYPVSSNGGHNDKQNFRIQDRSYHHDQYYNGTTGFYTMAMEEGARARPYAVPLPRTPAVTLSRPPNSGSTTNGQHQFVQNMGPPIPPPNWITRVPDTNGIYAGHQETALGGTYDKQNMKVYQVKTRQPQDMPEYGNQ*






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