Plant MITE

SE0530007

Basic info.

MITE ID
Species
MITE identifier
Superfamily
Family
Genomic location
TSD
TIR

MITE_2972
Capsella rubella
SE0530007
hAT
Hat1
scaffold_4:2077460-2078068
GGTTCTTG
TGTAGGCCTGGGC

Secondary structure and sequence

TSD TIR

5'

3'

GGTTCT G   G       AAAAAAAC    ACCGAAAATCCGAACCGGAACCGATCCGAAAAATTAAACCCGAATCCGAATCCGAAATTTTAGATTTACCCTATTGGGTCCTAAACTCCTCTACCCGAAAACCCGAACCCGAACCGAACCCGAACCCGAAAATACCCGAAATATAAATGTATAAAAATAATTTAGGATCCGAATACCCGAGTTATCTATTCAAATATCCGAATTTATACCCGAAATTCTGATTTTTTACCCGAAAATCCCGGTATTTATTAAAAAAATTCTGAAATTTTATCCGAAA
      T TAG CCTGGGC        CGGA                                                                                                                                                                                                                                                                                     
      | ||| |||||||        ||||                                                                                                                                                                                                                                                                                     A
      G ATC GGACCCG        TAAG                                                                                                                                                                                                                                                                                     
GTTCTT G   G       --------    CCCATGAGCCAAGCCCAAGCCCATTTTTGGCAAGCCCAAGCCCAAAGAGCCCATCTCCTCAAATCCTGGGTTATCCCATTTGTATTTTTAAGCCAAGCCAAAGCCAAGCCCAGGTAAGCCCAACCCCAGCCAAGCCCATATTTAAAAGTCTTGGCAATTTTTAGGCTCTTTTAAAGCCCATGTGTTTATGGGCTTTTAAATGGGCTTATGGGCTTTTAAAAGCCCATTTAAAAGCCCAAAAGCCTGTTTATGGGTTTAAAAACCCATTTATGGGTCT

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

>SE0530007

GGTTCTTGTAGGCCTGGGCAAAAAAACCGGAACCGAAAATCCGAACCGGAACCGATCCGAAAAATTAAACCCGAATCCGAATCCGAAATTTTAGATTTACCCTATTGGGTCCTAAACTCCTCTACCCGAAAACCCGAACCCGAACCGAACCCGAACCCGAAAATACCCGAAATATAAATGTATAAAAATAATTTAGGATCCGAATACCCGAGTTATCTATTCAAATATCCGAATTTATACCCGAAATTCTGATTTTTTACCCGAAAATCCCGGTATTTATTAAAAAAATTCTGAAATTTTATCCGAAAATCTGGGTATTTACCCAAAAATTTGGGTATTTGTCCGAAAACCCGAAAATTTACCCGAAAATTTTCGGGTATTCGGGTAAATTTTCGGGTATTTGTGTACCCGAAATTTTCTCGGATTTTTAACGGTTCTGAAAATTTATACCCGAACCGACCCCAACCCGAATGGACCCGAACCGAAACCGAACCGAATTTTTATGTTTACCCTATTGGGTCCTAAACTCCTCTACCCGAGAAACCCGAACCCGAACGGTTTTTACCCGAACCCGAACCGAGTACCCGAATGCCCAGGGCTAGGTTCTTG

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