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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttggcttgattcctcatgatttatctcatttcgaaattactctccactctccttgtgtatttacaccattacatttttccccttcttttattgaacag

Basic information

species Zea mays
transcript GRMZM5G871336_T01
intron # 5
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|71430125|gb|DR811175.1|DR811175
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
EST: gi|211068146|gb|FL037286.1|FL037286
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTA
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTA
EST: gi|211070875|gb|FL037292.1|FL037292
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
EST: gi|71432140|gb|DR813190.1|DR813190
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
EST: gi|71311972|gb|DR792494.1|DR792494
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
EST: gi|148950551|gb|EC896128.2|EC896128
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
EST: gi|13381878|gb|BG458553.1|BG458553
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
EST: gi|93012464|gb|EB637984.1|EB637984
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
EST: gi|149059964|gb|EE157094.2|EE157094
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
EST: gi|149045945|gb|EE047943.2|EE047943
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCA
EST: gi|211070884|gb|FL037301.1|FL037301
EST:     GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCAT                         TGTCTCCCTTGAGGACGTTGCTCTAGTCCCT
genomic: GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCC-TTGAGGACGTTGCTCTAGTCCCT

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), 47 (downstream exon)
Score: 39

GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCATTACAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 24

GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCATTACAG


Block sizes: 39 (upstream exon), 48 (downstream exon)
Score: 18

GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCATTACAG


Block sizes: 19 (upstream exon), 49 (downstream exon)
Score: 23

GATTGACATACAGACAAATACAAGACATTTTCTCTCTTTGTATCATgtaagtgttg ... tattgaacagTATCTCCTTGAGGACGTTGCTCTAGTCCCTGAAAGACTTAGTAAAATATCATTACAG