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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCACAAGCATTGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctatcctgtagtgtttagtttgtagtttactagatgtcctttcttgtttagcagaagtttgtgcagcgttggattttttggtgactgtttcatg...

Basic information

species Zea mays
transcript GRMZM2G096553_T03
intron # 15
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|60347237|gb|DN214210.1|DN214210
EST:     TGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAG                         GATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
genomic: TGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
EST: gi|86465812|gb|DY232185.1|DY232185
EST:     TGAAATGGCTAGAAAG                         GATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
genomic: TGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
EST: gi|166619936|gb|EG146972.1|EG146972
EST:     TTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAG                         GATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
genomic: TTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
EST: gi|13149317|gb|BG319639.1|BG319639
EST:     TGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAG                         GATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
genomic: TGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
EST: gi|60349430|gb|DN216403.1|DN216403
EST:     GAAATGGCTAGAAAG                         GATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
genomic: GAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
EST: gi|211061095|gb|FL320235.1|FL320235
EST:     TGTTTCMTGGGAATGAAATTGCCGAGATTTACCATGAAATG-CTAGAAAG                         GATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
genomic: TGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
EST: gi|71773678|gb|DR971575.1|DR971575
EST:     TGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAG                         GATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
genomic: TGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
EST: gi|6031366|gb|AW076223.1|AW076223
EST:     TGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAG                         GATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA
genomic: TGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA

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: 218

TTCACAAGCATTGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 97

TTCACAAGCATTGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 85

TTCACAAGCATTGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA


Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 122

TTCACAAGCATTGTTTCCTGGGAATGAAATTGCCGAGATTTACCATGAAATGGCTAGAAAGgtaaccctat ... catgacacagGATGGCATTAGCTTGACGGAGAATGCTCATGGTGTCAA