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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGATCTGCCTCTTTGGGgtaggttgttctcaacatagtattttcttttgacaatgtgtctatctgttttgccttatatgatagctgccacatgttttgaacag

Basic information

species Zea mays
transcript GRMZM2G026231_T01
intron # 4
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|76919285|gb|DV167645.1|DV167645
EST:     TTTATAGATGATCTGCCTCTTTGGG                         GTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA
genomic: TTTATAGATGATCTGCCTCTTTGGGgtaggttgtt ... ttttgaacagGTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA
EST: gi|31354711|gb|CD439068.1|CD439068
EST:     TTTATAGATGATCTGCCTCTTTGGG                         GTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA
genomic: TTTATAGATGATCTGCCTCTTTGGGgtaggttgtt ... ttttgaacagGTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA
EST: gi|31355875|gb|CD440232.1|CD440232
EST:     TTTATAGATGATCTGCCTCTTTGGG                         GTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA
genomic: TTTATAGATGATCTGCCTCTTTGGGgtaggttgtt ... ttttgaacagGTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA
EST: gi|211012618|gb|FL213598.1|FL213598
EST:     TTTATAGATGATCTGCCTCTTTGGG                         GTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA
genomic: TTTATAGATGATCTGCCTCTTTGGGgtaggttgtt ... ttttgaacagGTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA
EST: gi|31357584|gb|CD441941.1|CD441941
EST:     TTTATAGATGATCTGCCTCTTTGGG                         GTTTTGTTGGGGAGTCTGACAAGAACAGGGAAA-CAAGCATTACCTTTACA
genomic: TTTATAGATGATCTGCCTCTTTGGGgtaggttgtt ... ttttgaacagGTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA
EST: gi|211012620|gb|FL213600.1|FL213600
EST:     TTTATAGATGATCTGCCTCTTTGGG                         GTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA
genomic: TTTATAGATGATCTGCCTCTTTGGGgtaggttgtt ... ttttgaacagGTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACA

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), 49 (downstream exon)
Score: 143

ATGATCTGCCTCTTTGGGgtaggttgtt ... ttttgaacagGTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACACACACAAGAACATCCTTGTTAAATACAATGATAACAGG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 156

ATGATCTGCCTCTTTGGGgtaggttgtt ... ttttgaacagGTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACACACACAAGAACATCCTTGTTAAATACAATGATAACAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 174

ATGATCTGCCTCTTTGGGgtaggttgtt ... ttttgaacagGTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACACACACAAGAACATCCTTGTTAAATACAATGATAACAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 180

ATGATCTGCCTCTTTGGGgtaggttgtt ... ttttgaacagGTTTTGTTGGGGAGTCTGACAAGAACAGTGAAAACAAGCATTACCTTTACACACACAAGAACATCCTTGTTAAATACAATGATAACAGG