Plant MITE

SE4150008

Basic info.

MITE ID
Species
MITE identifier
Superfamily
Family
Genomic location
TSD
TIR

MITE_10968
Theobroma cacao
SE4150008
PIF/harbinger
To2
Tc09:12593674-12594337
CAT
GTGTCAAGGTCC

Secondary structure and sequence

TSD TIR

5'

3'

CAT      A     ---ACA      CT      GTATTATCTGCTTTGGCCCGTTGGCCTCACGATTTTGTCTCACAAAAGGTGCCTCATAGGTTGAAGGGGGTGTGAACTCTTATATGCCCAGTATCACTCTAATACATAGCCAACGTGGGATTCATGGCTCCCCTCTCTAAGACCATGACATCCTCTTTTACTCCCCGTTGAAAGTTTTTCTTCGATATGGGACTTTTTGGCTTTACCTGCTAGCAACATTATCTCAATGATGTGGGATTCACATCCATGCAAGGATCGTGACATCCTTCCCCACTTCAACAAGGGTCCACTATCCTCA
   GTGTCA GGTCC      TCAACC  TGTGAG                                                                                                                                                                                                                                                                                                          
   |||||| |||||      ||||||  ||||||                                                                                                                                                                                                                                                                                                          G
   CACAGT CCAGG      CCGGTA  TAGGGT                                                                                                                                                                                                                                                                                                          
TAC      G     AGTACA      TT      GTAACAGCTCTATTACCAGGGTCCCCCATCTCGGTGTTTCAGGGTGTAACTTCTCTTTGAACGTCGCTTCTTATTCCCTTCTACAGTACTAGGATCTCTCCCCTCGGTACTTAGGGTGTAACCGATGCATGATCTCACTATGACCTGTATATTCTCAAGTGTGTGAAAATTGGATACTCCGCGGAAAACACCCTGTTTTGAGACTCCGATCACCTATTTCGCTTATTATGGAGTATCCCCAACCACACCTAAAACTATCAACCATAGTTTCGTCTGAGACTCGTGATCGCTACACGGT

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

>SE4150008

CATGTGTCAAGGTCCACATCAACCCTTGTGAGGTATTATCTGCTTTGGCCCGTTGGCCTCACGATTTTGTCTCACAAAAGGTGCCTCATAGGTTGAAGGGGGTGTGAACTCTTATATGCCCAGTATCACTCTAATACATAGCCAACGTGGGATTCATGGCTCCCCTCTCTAAGACCATGACATCCTCTTTTACTCCCCGTTGAAAGTTTTTCTTCGATATGGGACTTTTTGGCTTTACCTGCTAGCAACATTATCTCAATGATGTGGGATTCACATCCATGCAAGGATCGTGACATCCTTCCCCACTTCAACAAGGGTCCACTATCCTCAGTGGCACATCGCTAGTGCTCAGAGTCTGCTTTGATACCAACTATCAAAATCCACACCAACCCCTATGAGGTATTATTCGCTTTATCCACTAGCCTCAGAGTTTTGTCCCACAAAAGGCGCCTCATAGGTTAAAAGTGTGTGAACTCTTATATGTCCAGTATCACTCTAGTACGTAGCCAATGTGGGATTCATGGCTCCCCTCTCTAGGATCATGACATCTTCCCTTATTCTTCGCTGCAAGTTTCTCTTCAATGTGGGACTTTGTGGCTCTACCCCCTGGGACCATTATCTCGACAATGTGGGATTTATGGCCACATGAGGACCGTGACACCAT

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