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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccggacccctttgcattttctcggcgaagccgtgcttgtgtaaattcgccttcttttatttgagtagtgatttgtgagtggtcacgcacctct...

Basic information

species Zea mays
transcript GRMZM2G070378_T01
intron # 2
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:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211362406|gb|FL344697.1|FL344697
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211155533|gb|FL327677.1|FL327677
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211475243|gb|FL335043.1|FL335043
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|18167419|gb|BM337258.1|BM337258
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211049868|gb|FL342249.1|FL342249
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211090846|gb|FL316187.1|FL316187
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211155695|gb|FL336009.1|FL336009
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211211167|gb|FL351365.1|FL351365
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|18166077|gb|BM335916.1|BM335916
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211096078|gb|FL328998.1|FL328998
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211033675|gb|FL344500.1|FL344500
EST:     CWBSGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211129076|gb|FL366496.1|FL366496
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211251061|gb|FL352807.1|FL352807
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211230922|gb|FL338414.1|FL338414
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211275935|gb|FL328144.1|FL328144
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211399575|gb|FL345591.1|FL345591
EST:     TCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: TCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211049600|gb|FL335096.1|FL335096
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|32863181|gb|CF002863.1|CF002863
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA
EST: gi|211111367|gb|FL325871.1|FL325871
EST:     CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAG                         GGGCTAAAGCAGAGGCACCATCTTCTGGAGAAATTAAAAATTACCGCTTTA
genomic: CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTA

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: 152

CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTAGATCTGATGTGCCTTGCCCACCTTCTCATACTGCCGTAGGAGGTCCAGC


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 160

CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTAGATCTGATGTGCCTTGCCCACCTTCTCATACTGCCGTAGGAGGTCCAGC


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 133

CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTAGATCTGATGTGCCTTGCCCACCTTCTCATACTGCCGTAGGAGGTCCAGC


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 253

CGGCGTCGCAACCCGCAGACCAGCACGCGACCCTCATGTTCCGGTTAGgtatgcaccg ... tctcttttagGGGCTAAAGCAGAGGCACCATCTTCTGGAGAGATTAAAAATTACCGCTTTAGATCTGATGTGCCTTGCCCACCTTCTCATACTGCCGTAGGAGGTCCAGC