Plant MITE

SE2230010

Basic info.

MITE ID
Species
MITE identifier
Superfamily
Family
Genomic location
TSD
TIR

MITE_4733
Zea mays
SE2230010
hAT
Hat1
chr1:236842123-236842642
CATGCAGG
TGCAGGTAGGGGTGGGCAT

Secondary structure and sequence

TSD TIR

5'

3'

CA    G      G       TTTTTACCGTAAACAGAAAAC  AACCGAAATTTCAGTTTTTTTGGTAATTCGTTTTGGTTTTTAGATCTGAGAATTTCGGTATTCGGTATCGTAATCGGTTTTCACCGTATACCGAACCGAAATACCAAAAAACCGAATACCAAACTTTATGAATTCAAAATTTTGACTATTTGATTATGTAAACTAAATGTGTAATGCAATCAAACTGTTATTCACTTATTTGTATGTGATGTATGATATATCTTGA
  TGCA GTAGGG TGGGCAT                     CG                                                                                                                                                                                                                                  
  |||| |||||| |||||||                     ||                                                                                                                                                                                                                                  A
  ACGT CATCCC ACCCGTA                     AG                                                                                                                                                                                                                                  
GG    A      G       ---------------------  TCAAAACAAACCTTAAAGCCAAGCCAAAAAGCTCAAATTTTTTGCAGCCAAAAGGTTTATAATCTTTGGCTAGCCAAAAGATCTTTTACTTTTGGCTATTCAAGCCAAAGCCAAAAAATGAAGCCAAAAAACCATTTTTGGCTTATGGTTTGAATATGAATTCTTCCGATGTTCTGTTGTATAATGTGTATTAAAATTTTTCATTTTTAATATATCCATATTTGTA

Get MITE sequence

MITE cluster

MITE ID	MITE identifier	Chr	Start	End
Vca-MIR1168	PmiREN020835	PmiREN020834	MIR1168	Vca-scaffold_12
Vca-MIR1168	PmiREN020835	PmiREN020834	MIR1168	Vca-scaffold_12

Closed gene

MITE ID	MITE identifier	Chr	Start	End

>SE2230010

CATGCAGGTAGGGGTGGGCATTTTTTACCGTAAACAGAAAACCGAACCGAAATTTCAGTTTTTTTGGTAATTCGTTTTGGTTTTTAGATCTGAGAATTTCGGTATTCGGTATCGTAATCGGTTTTCACCGTATACCGAACCGAAATACCAAAAAACCGAATACCAAACTTTATGAATTCAAAATTTTGACTATTTGATTATGTAAACTAAATGTGTAATGCAATCAAACTGTTATTCACTTATTTGTATGTGATGTATGATATATCTTGAAATGTTTATACCTATATAATTTTTACTTTTTAAAATTATGTGTAATATGTTGTCTTGTAGCCTTCTTAAGTATAAGTTTGGTATTCGGTTTTTACCAAAAAACCGAAGTAAAAAACCGAAACCGAACTTATCGGTTTTCATTTTCTAGAAAACCGATCGGTTTCTAATATTTGGAAAACCGACGTTTTTTAAACTCGAAAAACCGAACCGAAATTCCAAACAAAACTGAATGCCCAGCCCTACATGCAGG

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