Displaying DV493601 on SAM Chip 1.0 (GPL2557): SAM vs Whole Seedling

Accession 1: DV493601 (GenBank)  Gene: 0
Accession 2:   Library Index: IUG35_RS-B-10
Gene Names:
  • Statistically defined repeat DNA
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 0.001155244 312.569
Medium 1.89e-05 39.5733
High 9.43e-06 36.6027
BLAST results for DV493601   
BLASTN E-value: 0.0 Longest MEC sequence 
BLASTX E-value: None    
MAGI blast Fresh results
Show/Hide Reading Frames/PsortPrediction
Researcher: DJ-B (djb checked)(C. Manton checked)   Last Updated: 2007-05-14
Notes:

Replaces accession AI855112

could not identify a longer sequence on the MAGI database.

Ran the accession's sequence through repeatmasker and got the following results:

Repeats

>AI855112 606075D07.x1 606 - Ear tissue cDNA library from Schmidt lab Zea mays cDNA, mRNA sequence. (515 bp masked -- 88.64% masked)
GNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCAACTGATATAAGTTCACAAAATAAACTGCAGCAGAT
AATTGATATCGTTGAAAGCAAGGATTAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNN

BLAST of Repeats database:

                                                                Score    E
Sequences producing significant alignments:                      (bits) Value

zm_SDRv3.1_13545                                                      278   7e-75
zm_SDRv3.1_13539                                                      260   2e-69
zm_SDRv3.1_13492                                                      248   7e-66
zm_SDRv3.1_13546                                                      174   8e-44
zm_SDRv3.1_13543                                                      167   2e-41
zm_SDRv3.1_13491                                                      165   8e-41
zm_SDRv3.1_13451                                                      157   2e-38
zm_SDRv3.1_13550                                                      145   7e-35
zm_SDRv3.1_13549                                                      121   1e-27
zm_SDRv3.1_13542                                                      105   6e-23

 InterPro Scan of original sequence:

SEQUENCE: DV493601_1_ORF2 CRC64: E935C380D3BAACCB LENGTH: 75 aa
No hits reported.
SEQUENCE: DV493601_2_ORF2 CRC64: BDD9BA5C91EE1C27 LENGTH: 56 aa
noIPR
unintegrated
unintegrated
SIGNALP signalp signal-peptide NA [1-24]?
Parent no parent
Children no children
Found in no entries
Contains no entries
GO terms none
SEQUENCE: DV493601_3_ORF1 CRC64: 54BDA521A656480C LENGTH: 49 aa
No hits reported.
SEQUENCE: DV493601_3_ORF2 CRC64: 011857A277567C92 LENGTH: 42 aa
No hits reported.
SEQUENCE: DV493601_4_ORF2 CRC64: 0DE41202B3991B25 LENGTH: 54 aa
noIPR
unintegrated
unintegrated
SIGNALP signalp signal-peptide NA [1-33]?
TMHMM tmhmm transmembrane_regions NA [4-24]?
Parent no parent
Children no children
Found in no entries
Contains no entries
GO terms none
SEQUENCE: DV493601_5_ORF2 CRC64: 73CD007E95E17DFF LENGTH: 41 aa
No hits reported.

 

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

Truman State University | Math & CS Department | Biology Department