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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGCCGCAGAACGCCAGATTTTGATTGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatggttaccttgctgcaaaattgcaaacttccttactccccttctcaatccatagttttcatcgtcagttacatcactcaagtatacttgctt...

Basic information

species Zea mays
transcript GRMZM2G164916_T03
intron # 2
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|22490540|gb|BU050463.1|BU050463
EST:     TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTG                         CTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
genomic: TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
EST: gi|71775257|gb|DR973135.1|DR973135
EST:     TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTG                         CTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
genomic: TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
EST: gi|211278361|gb|FL132344.1|FL132344
EST:     TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTG                         CTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
genomic: TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
EST: gi|211404678|gb|FL116464.1|FL116464
EST:     TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTG                         CTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
genomic: TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
EST: gi|211278362|gb|FL132345.1|FL132345
EST:     TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTG                         CTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
genomic: TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
EST: gi|211061080|gb|FL205432.1|FL205432
EST:     TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTG                         CTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
genomic: TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
EST: gi|18965054|gb|BM661366.1|BM661366
EST:     TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTG                         CTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
genomic: TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
EST: gi|211280152|gb|FL132346.1|FL132346
EST:     TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTG                         CTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
genomic: TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
EST: gi|76018661|gb|DT945831.1|DT945831
EST:     TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTG                         CTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT
genomic: TGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAAT

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: 49 (upstream exon), 48 (downstream exon)
Score: 127

GGGCCGCAGAACGCCAGATTTTGATTGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAATTCCAAAGGATGCGCGTAACTCTCACCATAGGTGTCATTGGCCTCTGTGT


Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 71

GGGCCGCAGAACGCCAGATTTTGATTGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAATTCCAAAGGATGCGCGTAACTCTCACCATAGGTGTCATTGGCCTCTGTGT


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 63

GGGCCGCAGAACGCCAGATTTTGATTGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAATTCCAAAGGATGCGCGTAACTCTCACCATAGGTGTCATTGGCCTCTGTGT


Block sizes: 46 (upstream exon), 45 (downstream exon)
Score: 169

GGGCCGCAGAACGCCAGATTTTGATTGTTCCACATCTTCTTTCATCTCTGAGGGGTTTCCCGTCTTCCTCGCCTGgttagttatg ... tttcttgcagCTCTAATGGCTAAAGAACAGGATGGATCCCCCAAGGTGCGCCACCCAGAATTCCAAAGGATGCGCGTAACTCTCACCATAGGTGTCATTGGCCTCTGTGT