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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCCGGCTGGGATCACCGCGCGTTTGCCGGCGCCATGGCCGTCGCAGTCGCCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgcgctaccgcttccctccccttctgctccccgtcgacgccatctcctcagccccagattgcatctccctcttcttcctctggttctttcggcccgggcagaatgcctcttttttttcttcttcttcttactcgcaggctgcgggcttatgctcgaaggcgcgatctttacgctcggagtggcttcgtttcag

Basic information

species Zea mays
transcript GRMZM5G834205_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|211276227|gb|FL230642.1|FL230642
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCTTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCCTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|78116689|gb|DV535076.1|DV535076
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|211276228|gb|FL230643.1|FL230643
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|89250673|gb|DY622459.1|DY622459
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|211276231|gb|FL230646.1|FL230646
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAWTA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|74245588|gb|DT653502.1|DT653502
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|149083865|gb|EE173240.2|EE173240
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|149079653|gb|EE168650.2|EE168650
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|149088094|gb|EE177262.2|EE177262
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|211276224|gb|FL230639.1|FL230639
EST:     CGTCGCCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CGTCG-CCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|76291818|gb|DV031386.1|DV031386
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCT--                         -AGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|88752284|gb|DY536425.1|DY536425
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|76281750|gb|DV021318.1|DV021318
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|76924364|gb|DV169917.1|DV169917
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|149105966|gb|EE291599.2|EE291599
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|211276230|gb|FL230645.1|FL230645
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCKTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|71428014|gb|DR809064.1|DR809064
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|211276222|gb|FL230637.1|FL230637
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCTTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCCTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|211276225|gb|FL230640.1|FL230640
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|149102742|gb|EE288091.2|EE288091
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|78091791|gb|DV520165.1|DV520165
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|86465690|gb|DY232063.1|DY232063
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGAGGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|148938287|gb|EC882591.2|EC882591
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|76282168|gb|DV021736.1|DV021736
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|71326005|gb|DR799685.1|DR799685
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|211276226|gb|FL230641.1|FL230641
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCTTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCCTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|86472431|gb|DY238801.1|DY238801
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|149095623|gb|EE174749.2|EE174749
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
EST: gi|101391434|gb|EB817652.1|EB817652
EST:     CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAG                         GAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA
genomic: CCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATA

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: 59

CCCCGGCTGGGATCACCGCGCGTTTGCCGGCGCCATGGCCGTCGCAGTCGCCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATACCGGGGCCGGCCTGGATTTGCTCGAGAGTGAGAGGAAGGCGTAACAGTG


Block sizes: 46 (upstream exon), 46 (downstream exon)
Score: 33

CCCCGGCTGGGATCACCGCGCGTTTGCCGGCGCCATGGCCGTCGCAGTCGCCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATACCGGGGCCGGCCTGGATTTGCTCGAGAGTGAGAGGAAGGCGTAACAGTG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 25

CCCCGGCTGGGATCACCGCGCGTTTGCCGGCGCCATGGCCGTCGCAGTCGCCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATACCGGGGCCGGCCTGGATTTGCTCGAGAGTGAGAGGAAGGCGTAACAGTG


Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 29

CCCCGGCTGGGATCACCGCGCGTTTGCCGGCGCCATGGCCGTCGCAGTCGCCGTCGCCAGCCAAAATCCACTAGCAGCGCGTAACCTCCTGCCGATCTAGgttggtgcgc ... ttcgtttcagGAGACGGGGGATTTCTTCTCGCCCTTTTCCTCGCCTTGCGGCTGCGGAATACCGGGGCCGGCCTGGATTTGCTCGAGAGTGAGAGGAAGGCGTAACAGTG