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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGCTTACCGTCGCCTTCCTGCTACCCGCCTCTTTCGGCTTCCTCCTCACCGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaactacgtttcagtttggtgttgcattgatcccattttctggtcgtgcgccgcatttgaccgtcttttatctgactgattggtggcctcgctttgtgtatgcttgtggattttgttag

Basic information

species Zea mays
transcript GRMZM2G030628_T01
intron # 1
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|148967472|gb|EE018708.2|EE018708
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211468826|gb|FL048935.1|FL048935
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211468828|gb|FL048937.1|FL048937
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211468823|gb|FL048932.1|FL048932
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|93014324|gb|EB639844.1|EB639844
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211468834|gb|FL048943.1|FL048943
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211468829|gb|FL048938.1|FL048938
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211468825|gb|FL048934.1|FL048934
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|76282827|gb|DV022395.1|DV022395
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|91874212|gb|EB404169.1|EB404169
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211471358|gb|FL048948.1|FL048948
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211184345|gb|FL140051.1|FL140051
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211468836|gb|FL048945.1|FL048945
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211471359|gb|FL048949.1|FL048949
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211468827|gb|FL048936.1|FL048936
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211468824|gb|FL048933.1|FL048933
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|71301850|gb|DR786994.1|DR786994
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
EST: gi|211468831|gb|FL048940.1|FL048940
EST:     CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACATAAGCCCAGA                         GGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG
genomic: CGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGG

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: 44 (upstream exon), 49 (downstream exon)
Score: 19

CCGCTTACCGTCGCCTTCCTGCTACCCGCCTCTTTCGGCTTCCTCCTCACCGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGGGGTAAGACTTCGCTCAAGGTGATGATTTCGGGAGCTCCCGCCTCGGGAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 88

CCGCTTACCGTCGCCTTCCTGCTACCCGCCTCTTTCGGCTTCCTCCTCACCGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGGGGTAAGACTTCGCTCAAGGTGATGATTTCGGGAGCTCCCGCCTCGGGAA


Block sizes: 44 (upstream exon), 43 (downstream exon)
Score: 10

CCGCTTACCGTCGCCTTCCTGCTACCCGCCTCTTTCGGCTTCCTCCTCACCGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGGGGTAAGACTTCGCTCAAGGTGATGATTTCGGGAGCTCCCGCCTCGGGAA


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

CCGCTTACCGTCGCCTTCCTGCTACCCGCCTCTTTCGGCTTCCTCCTCACCGGCTATCTCCACCGTCTCCGCATTCGCTGTCCTCAAACACAAGCCCAGAgttcgtaact ... attttgttagGGTCTGGGACTAAGGTGCCAGGCCGCGGAGGAGGCACCACCGCCGGCGCGGGGTAAGACTTCGCTCAAGGTGATGATTTCGGGAGCTCCCGCCTCGGGAA