Displaying DV493695 on SAM Chip 1.0 (GPL2557): SAM vs Whole Seedling

Accession 1: DV493695 (GenBank)  Gene: 0
Accession 2:   Library Index: IUG36_RS-B-11
Gene Names:
  • unknown protein
Categories:   
 ATPase
 Cell Division
 Cell Cycle
 DNA Replication
 Chromatin
 Chromatin Remodeling
 Chromatin Structure
 Cytoskeletal
 DNA Repair
 Defense
 Development
 Extracellular Matrix/Cell Wall
 Gene Silencing
  Metabolism
 Lipid
 Nucleotide
 Amino Acid
 Sugar
 Energy
 MySEG
 No hits
 Other
 Photosynthesis-related
 Protein Fate
 Proteolysis
 Chaperone
 RNA Binding Protein
 RNA Processing
 Respiration
  Signal Transduction
 Phosphatase
 G-proteins and Associated Proteins
 Signal Molecules
 Kinases
 Receptors
 Stress-related
 Transcription
 Transcription-Associated Proteins
 Transcription Factors
 Translation
 Ribosome
 Translation-Associated Proteins
 Transport
 Transposable Elements
 DNA Transposons
 Retrotransposon
 Unknown
 Vesicle Trafficking
GO Categories:
Molecular Function
molecular_function unknown
signal transducer activity
transporter activity
antioxidant activity
catalytic activity
triplet codon-amino acid adaptor activity
enzyme regulator activity
transcription regulator activity
binding
motor activity
structural molecule activity
nutrient reservoir activity
chaperone regulator activity
 Biological Process
behavior
physiological process
cellular process
biological_process unknown
regulation of biological process
development
viral life cycle
 Cell Component
cellular_component unknown
extracellular region
virion
cell
organelle
extracellular matrix
protein complex
Light Intensity Reads P-Value Fold Change
Low 1.44e-05 943.169
Medium 0.002059792 248.401
High 1.95e-05 63.5889
BLAST results for DV493695   
BLASTN E-value: 0.0 Longest MEC sequence 
BLASTX E-value: 1e-101    
MAGI blast Fresh results
Show/Hide Reading Frames/PsortPrediction
Researcher: Lisa Grantham (djb checked), (eneda h checked)(C. Manton che   Last Updated: 2007-05-14
Notes:

Replaces accession AI670191

Found longer sequence from MAGI:

>MEC_31079_P95-Mar06
          Length = 1344

Score = 1304 bits (658), Expect = 0.0
Identities = 672/679 (98%)
Strand = Plus / Plus

Repeatmasker:  0 bp masked

BLASTx of MEC yielded hits with hypothetical and unknown proteins:

                                                                   Score     E
Sequences producing significant alignments:                       (Bits)  Value

gi|115483937|ref|NP_001065630.1|  Os11g0127700 [Oryza sativa (...  373    1e-101 UniGene infoGene info
gi|125533234|gb|EAY79782.1|  hypothetical protein OsI_033741 [...  371    6e-101
gi|115487098|ref|NP_001066036.1|  Os12g0123900 [Oryza sativa (...  359    2e-97  UniGene infoGene info
gi|108862120|gb|ABG21861.1|  expressed protein [Oryza sativa (jap  355    3e-96
gi|125535622|gb|EAY82110.1|  hypothetical protein OsI_036069 [...  305    4e-81
gi|140057614|gb|ABO81331.1|  hypothetical protein MtrDRAFT_AC1...  203    2e-50
gi|30682651|ref|NP_566456.3|  unknown protein [Arabidopsis tha...  201    1e-49  Gene info
gi|24417230|gb|AAN60225.1|  unknown [Arabidopsis thaliana]         201    1e-49  UniGene info
gi|21618303|gb|AAM67353.1|  unknown [Arabidopsis thaliana]         125    4e-27  UniGene info

BLASTn of MEC was uninformative:

AccessionDescriptionMax scoreTotal scoreQuery coverageE valueMax identLinks
AY109148.1
Zea mays PCO129008 mRNA sequence
 2464 2464 97% 0.0 98% UniGene info
BT019120.1
Zea mays clone Contig732.F mRNA sequence
 807 807 32% 0.0 98% UniGene info
AY104784.1
Zea mays PCO129009 mRNA sequence
 531 758 59% 2e-147 87% UniGene info
NM_001072162.1
Oryza sativa (japonica cultivar-group) Os11g0127700 (Os11g0127700) mRNA, complete cds
 194 368 42% 6e-46 91% UniGene infoGene info
NM_001072568.1
Oryza sativa (japonica cultivar-group) Os12g0123900 (Os12g0123900) mRNA, complete cds
 186 306 39% 2e-43 86% UniGene infoGene info
AK103742.1
Oryza sativa (japonica cultivar-group) cDNA clone:J033138L11, full insert sequence
 186 360 42% 2e-43 91% UniGene infoGeo
AK061862.1
Oryza sativa (japonica cultivar-group) cDNA clone:001-040-G12, full insert sequence
 186 306 39% 2e-43 86% UniGene infoGeo
CT830082.1
Oryza sativa (indica cultivar-group) cDNA clone:OSIGCRA119K15, full insert sequence
 178 298 39% 4e-41 86% UniGene info
AP008218.1
Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 12
 79.8 319 26% 3e-11 91%

 

InterPro Scan of MEC showed it as a signal peptide:

SEQUENCE: MEC_31079_P95-Mar06_4_ORF2 CRC64: D1A2EC259C7A5D12 LENGTH: 331 aa
noIPR
unintegrated
unintegrated
SIGNALP signalp signal-peptide NA [1-37]?
TMHMM tmhmm transmembrane_regions NA [21-41]? NA [299-319]?
Parent no parent
Children no children
Found in no entries
Contains no entries
GO terms none

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Partial support for this work is provided by the National Science Foundation.

Truman State University | Math & CS Department | Biology Department