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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaaccacaatgcatcttcgtccttctcaccagcgaaacctttcgcatcagttcttgactcttgtagtcttcgtgtgtgtgccaattatattgcttgcttgtgtccgacgcag

Basic information

species Zea mays
transcript GRMZM2G146463_T03
intron # 13
splice site 5'
intron type U2

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|22935898|gb|BU572173.1|BU572173
EST:     TGAGACGCTGGGGATCCTCTCCAACGCAGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTC-AAGGACAGAAAG-GAGCAAG-ACGGCAACG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACG
EST: gi|71443279|gb|DR824329.1|DR824329
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|86465787|gb|DY232160.1|DY232160
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|78113278|gb|DV531670.1|DV531670
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|86466262|gb|DY232634.1|DY232634
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|5006127|gb|AI712189.1|AI712189
EST:     TGAGACGCTGGGGATCCTCTCCAACGCAGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|71443417|gb|DR824467.1|DR824467
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|50334851|gb|CO529977.1|CO529977
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|60357458|gb|DN224431.1|DN224431
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|87157241|gb|DY402030.1|DY402030
EST:     TGAGACGCTGGGGATCCTCTCCAACGCAGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACNGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|91874598|gb|EB404555.1|EB404555
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|60338146|gb|DN205119.1|DN205119
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|23199550|gb|BU582115.1|BU582115
EST:     TGAGACGCTGGGGATCCTCTCCAACGCAGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAA
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAA
EST: gi|74238711|gb|DT646625.1|DT646625
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|71318125|gb|DR795824.1|DR795824
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|91054334|gb|EB164752.1|EB164752
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|89763955|gb|DY690933.1|DY690933
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|149055655|gb|EE156360.2|EE156360
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|78080807|gb|DV509219.1|DV509219
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGGGGTCATCGCGATCAGCCAAG                         ATCGGGTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|71430639|gb|DR811689.1|DR811689
EST:     CAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: CAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|50330298|gb|CO525424.1|CO525424
EST:     CCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: CCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|78073768|gb|DV502202.1|DV502202
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|78075208|gb|DV503642.1|DV503642
EST:     TGAGACGCTGGGATTCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATTTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|87156914|gb|DY401703.1|DY401703
EST:     TGAGACGCTGGGGATCCTCTCCAACGCAGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCA-GGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|211420211|gb|FL465092.1|FL465092
EST:     GGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: GGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|78088430|gb|DV516823.1|DV516823
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
EST: gi|89763171|gb|DY690487.1|DY690487
EST:     TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG                         ATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG
genomic: TGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 60

GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 29

GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAG


Block sizes: 49 (upstream exon), 21 (downstream exon)
Score: 8

GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAG


Block sizes: 37 (upstream exon), 43 (downstream exon)
Score: 5

GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAGgtcaccacaa ... tccgacgcagATCGGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAG