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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCAAGGTGAACGAGGACTTCTACAAGTGGACGCTCTTTGGCGGCATCGTCACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCAgtaagtgactatccggcagccggtagtagtcccatttgttcttcttttcccttttttctattgtgtggccttgttgccggcttggttgtggaattctgcg...

Basic information

species Zea mays
transcript GRMZM2G151618_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|8516496|gb|BE123221.1|BE123221
EST:     CACGCTCGTCGCCGCCGTTGTCATGTTGCTTCTCTTCATCTCCGAGACCA                         GGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAA
genomic: CACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCAgtaagtgact ... atgttttcagGGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAA
EST: gi|213192332|gb|FM190469.1|FM190469
EST:     CACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCA                         GGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAA
genomic: CACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCAgtaagtgact ... atgttttcagGGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAA
EST: gi|9794229|gb|BE552537.1|BE552537
EST:     CACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCA                         GGTCATATTTTTATTCAGCAACAGAGACTAAGTTAG
genomic: CACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCAgtaagtgact ... atgttttcagGGTCATATTTTTATTCAGCAACAGAGACTAAGTTAG
EST: gi|211437617|gb|FL439438.1|FL439438
EST:     GCTTCTCTTCATCTCCGAGACCA                         GGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAA
genomic: GCTTCTCTTCATCTCCGAGACCAgtaagtgact ... atgttttcagGGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAA
EST: gi|32941231|gb|CF046050.1|CF046050
EST:     CACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCA                         GGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAA
genomic: CACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCAgtaagtgact ... atgttttcagGGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAA

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: 136

CCCAAGGTGAACGAGGACTTCTACAAGTGGACGCTCTTTGGCGGCATCGTCACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCAgtaagtgact ... atgttttcagGGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAAGAAGAGAAAGGCTACGAGTAAATGTTAGTACTTTTTAAACGAAATAAAC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 195

CCCAAGGTGAACGAGGACTTCTACAAGTGGACGCTCTTTGGCGGCATCGTCACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCAgtaagtgact ... atgttttcagGGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAAGAAGAGAAAGGCTACGAGTAAATGTTAGTACTTTTTAAACGAAATAAAC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 184

CCCAAGGTGAACGAGGACTTCTACAAGTGGACGCTCTTTGGCGGCATCGTCACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCAgtaagtgact ... atgttttcagGGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAAGAAGAGAAAGGCTACGAGTAAATGTTAGTACTTTTTAAACGAAATAAAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 197

CCCAAGGTGAACGAGGACTTCTACAAGTGGACGCTCTTTGGCGGCATCGTCACGCTCGTCGCCGCCGTCGTCATGTTGCTTCTCTTCATCTCCGAGACCAgtaagtgact ... atgttttcagGGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAAGAAGAGAAAGGCTACGAGTAAATGTTAGTACTTTTTAAACGAAATAAAC