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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTAAATTCTGTTGCTCCAATTCGGACGAGGAGATGCCGCGGATCCCTCTGATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctcccttttggttaccccccaatatcctcctcttctctacggtccgctagtccagttcgtcaggggatttctctcggtgtttctagtttttctcgatttgatattcgttcatcccgttgttacag

Basic information

species Zea mays
transcript GRMZM2G070378_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|211279692|gb|FL337093.1|FL337093
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211362406|gb|FL344697.1|FL344697
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211155533|gb|FL327677.1|FL327677
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211475243|gb|FL335043.1|FL335043
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|18167419|gb|BM337258.1|BM337258
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211049868|gb|FL342249.1|FL342249
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211090846|gb|FL316187.1|FL316187
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211155695|gb|FL336009.1|FL336009
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211211167|gb|FL351365.1|FL351365
EST:     GWTCAGGYKCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|18166077|gb|BM335916.1|BM335916
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211096078|gb|FL328998.1|FL328998
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211033675|gb|FL344500.1|FL344500
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCG-C--                         CWBSGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211129076|gb|FL366496.1|FL366496
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211251061|gb|FL352807.1|FL352807
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211230922|gb|FL338414.1|FL338414
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211275935|gb|FL328144.1|FL328144
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211049600|gb|FL335096.1|FL335096
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|32863181|gb|CF002863.1|CF002863
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
EST: gi|211111367|gb|FL325871.1|FL325871
EST:     GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAG                         CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG
genomic: GATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG

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: 46 (upstream exon), 49 (downstream exon)
Score: 182

AGTAAATTCTGTTGCTCCAATTCGGACGAGGAGATGCCGCGGATCCCTCTGATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 151

AGTAAATTCTGTTGCTCCAATTCGGACGAGGAGATGCCGCGGATCCCTCTGATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 96

AGTAAATTCTGTTGCTCCAATTCGGACGAGGAGATGCCGCGGATCCCTCTGATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 250

AGTAAATTCTGTTGCTCCAATTCGGACGAGGAGATGCCGCGGATCCCTCTGATCAGGTTCCCCAAGCGGAATCTCAAAGCCCCATCTCCATCCGCGCCAGgtgctccctt ... gttgttacagCGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG