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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtctgacagaccaagtttcgtttctgttctgtcagctttgaaatggaagaaaaagtctttgttttgatttccacgtcttccaattcttgtgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTCTGTTCCCTGGTGTGGCGTGCTTCCTCGTCGCCGTCATCCTTGGCTCCGC

Basic information

species Zea mays
transcript GRMZM2G025528_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025528_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g31850.3 (Oryza sativa), 3'ss of exon 3
tgtctgacagaccaagtttcgtttctgttctgtcagctttgaaatggaagaaaaagtctttgttttgatttccacgtcttcca----attcttgtgt----tcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTCTGTTCCCTGGTGTGGCGTGCTTCCTCGTCGCCGTCATCCTTGGCTCCGC
        ||   |  ||        | |    ||   |       | |   |   |  ||||  | |||     ||    ||    | ||   |||    ||||||||||| || ||||| || ||||||||||||||||||||||| ||||||||||| |||||||| ||||| |||||||| || || ||||| |||||||| ||
--------agtttactttattcagtagctacagcaaactaattgctgtatccattattattgtcctaattattcagtagatcagaaaactcacatgttggatcttcagGCACAACACTGAATTATTTCCTGGACAACCGCATCAACAGAGCAGAGATTCTTTTCCCTGGAGTGGCCTGCTTCCTTGTTGCAGTCATTCTTGGCTCTGC
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|148994757|gb|EE034229.2|EE034229
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|148970951|gb|EE021758.2|EE021758
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|148936313|gb|EC880396.2|EC880396
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|71313732|gb|DR793456.1|DR793456
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCCTCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|148957676|gb|EC903790.2|EC903790
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|149086713|gb|EE176255.2|EE176255
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|148953239|gb|EE152723.2|EE152723
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|211063921|gb|FK969107.1|FK969107
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|149083933|gb|EE173311.2|EE173311
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|50339614|gb|CO534740.1|CO534740
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|71330461|gb|DR801989.1|DR801989
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|149072804|gb|EE161051.2|EE161051
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|93014257|gb|EB639777.1|EB639777
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCCGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGG
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGG
EST: gi|148995735|gb|EE034963.2|EE034963
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|148982279|gb|EE028228.2|EE028228
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|71446963|gb|DR828013.1|DR828013
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
EST: gi|32923995|gb|CF028807.1|CF028807
EST:     GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAG                         GCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC
genomic: GGGCCTCTCCGTCACTGAGGTCATCAGCTCCAGCATGGTGGTGGTCATAGgtaggttcgc ... tgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaagaaaaagtctttgttttgatttccacgtcttccaattcttgtgttcttcagGCACCACGCTGAACTACTTCCTGGACAACCGCATCAACAGGGCAGAGATTCTGTTCCCTGGTGTGGCGTGCTTCCTCGTCGCCGTCATCCTTGGCTCCGC
                 ttttgat  putative branch site (score: 4)
                                       ttcttgtgttcttc  putative PPT
                 ttttgattt  TA-rich tract