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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctactactcactgttttaccaactatatattgagttttcaggctttgttcaacatgtcacagaatattgtacatctactctgcag

Basic information

species Zea mays
transcript GRMZM2G024615_T02
intron # 9
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|211131648|gb|FL461409.1|FL461409
EST:     TCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATG                         CTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCA
genomic: TCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctacta ... tactctgcagCTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCA
EST: gi|37381562|gb|CF627675.1|CF627675
EST:     TGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATG                         CGTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAACAGCA
genomic: TGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctacta ... tactctgcagCTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCA
EST: gi|211034181|gb|FL478457.1|FL478457
EST:     TGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATG                         CTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCA
genomic: TGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctacta ... tactctgcagCTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCA
EST: gi|211034183|gb|FL478459.1|FL478459
EST:     TGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATG                         CTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCA
genomic: TGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctacta ... tactctgcagCTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCA
EST: gi|13150595|gb|BG320917.1|BG320917
EST:     TGCTTCA-TTTGCTATCTACAG-TTTTTCCATATCCTTTTGATGGCGATG                         CTTTGTGGCCTAACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCA
genomic: TGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctacta ... tactctgcagCTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCA
EST: gi|40287149|gb|CK327541.1|CK327541
EST:     TGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATG                         CGTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAACAGCA
genomic: TGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctacta ... tactctgcagCTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCA

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: 48 (upstream exon), 49 (downstream exon)
Score: 45

GTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctacta ... tactctgcagCTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCAGAAATACAAACTCCTACAGCGTGAGACCAGCCGAGATCGAAACAGTCAA


Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 26

GTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctacta ... tactctgcagCTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCAGAAATACAAACTCCTACAGCGTGAGACCAGCCGAGATCGAAACAGTCAA


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 35

GTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctacta ... tactctgcagCTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCAGAAATACAAACTCCTACAGCGTGAGACCAGCCGAGATCGAAACAGTCAA


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 61

GTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATGgtacctacta ... tactctgcagCTTTGTGGCCTCACGCATACACTGTCCAGTTAGCCGAGGAAGGGAGCAGCAGAAATACAAACTCCTACAGCGTGAGACCAGCCGAGATCGAAACAGTCAA