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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCGCTTCCAACACCGCCCCCCACTCCGTCGTCGCCGACCCCACTACTCTTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccccttccgttcttaaatatcgtttgacttttggcttccttggtacgtggaatccggggtccgggaatcctaactaggattgccatttgctcag

Basic information

species Zea mays
transcript GRMZM2G157310_T02
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|28566667|gb|CB278315.1|CB278315
EST:     TTGCCCGCAAAGTCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|101386461|gb|EB815247.1|EB815247
EST:     TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|5268576|gb|AI770540.1|AI770540
EST:     TTGCCCGCAAAGTCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|76293679|gb|DV033247.1|DV033247
EST:     TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|101385767|gb|EB814932.1|EB814932
EST:     TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|9951997|gb|BE638580.1|BE638580
EST:     TTGCCCGCAAAGTCGCAGACATCCGTGCCGCCGGACCCA-NAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|74242168|gb|DT650082.1|DT650082
EST:     TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|78092209|gb|DV520583.1|DV520583
EST:     TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|211095811|gb|FL316687.1|FL316687
EST:     TTGCCCGCAAAGTCGCAGA-ATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|211143628|gb|FL314871.1|FL314871
EST:     TTGCCCGCAAAGTCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|91048046|gb|EB158464.1|EB158464
EST:     TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|91050984|gb|EB161402.1|EB161402
EST:     TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|31354764|gb|CD439121.1|CD439121
EST:     TTGCCCGCAAAGTCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|71438827|gb|DR819877.1|DR819877
EST:     TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|50333544|gb|CO528670.1|CO528670
EST:     TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
EST: gi|71449422|gb|DR830472.1|DR830472
EST:     TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAG                         GTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC
genomic: TTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCC

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: 29

CTCCGCTTCCAACACCGCCCCCCACTCCGTCGTCGCCGACCCCACTACTCTTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCCCGCGGGCAGA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 47

CTCCGCTTCCAACACCGCCCCCCACTCCGTCGTCGCCGACCCCACTACTCTTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCCCGCGGGCAGA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 29

CTCCGCTTCCAACACCGCCCCCCACTCCGTCGTCGCCGACCCCACTACTCTTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCCCGCGGGCAGA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 17

CTCCGCTTCCAACACCGCCCCCCACTCCGTCGTCGCCGACCCCACTACTCTTGCCCGCAAAATCGCAGACATCCGTGCCGCCGGACCCACCAAACTCCAGgcaggcaccc ... atttgctcagGTTATCGCCGACTTCGATGGCACGCTCACGCGGTACTGGTACGACGGCGCCCGCGGGCAGA