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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGGCAATGATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttaccaagtctcgttgtaacagtagtggtatttgaattttaaatggtcatttccatggcttacctttgtggaatgttttttctatactctgccag

Basic information

species Zea mays
transcript GRMZM2G039263_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G039263_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os04g46620.1 (Oryza sativa), 5'ss of exon 5
AGAGGCAATGATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttac-caagtctcgttgtaacagtagtggtattt-gaattttaaatggtcatttccatggcttacct---ttgtggaatgt-tttttctatactctgccag---
 | ||||||||||||||||  || || |||||||| || ||||| |||||||||||||||||| |||   ||  ||    |  | | | |||   ||||   |||| ||| |    || |    ||  |||    |||   ||  | |||| | ||  | | | |    
CGGGGCAATGATCTTGTGAGAAACAAAATCCATCCGACATCTATTATCAGTGGCTACAGGgtgagttttgcacttcataattcagctgcagtacaatttcagatttaaaacgaatgttccagctgcaaacccacattgcttaacatgttttaccatcatttactaccag
















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|211380719|gb|FL215213.1|FL215213
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211250617|gb|FL215180.1|FL215180
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211380718|gb|FL215212.1|FL215212
EST:     ATCTTGTGAAGAATAANATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGA
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGA
EST: gi|149010855|gb|EE042239.2|EE042239
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211383350|gb|FL215223.1|FL215223
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGC-TGCAAATATG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATG
EST: gi|211250619|gb|FL215182.1|FL215182
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211243914|gb|FL215134.1|FL215134
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAA
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAA
EST: gi|211246156|gb|FL215156.1|FL215156
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAG
EST: gi|21331562|gb|BQ486943.1|BQ486943
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211248391|gb|FL215168.1|FL215168
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211378072|gb|FL215203.1|FL215203
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGC
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGC
EST: gi|211243920|gb|FL215140.1|FL215140
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGT
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGT
EST: gi|19058770|gb|BM737437.1|BM737437
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211250611|gb|FL215174.1|FL215174
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211243922|gb|FL215142.1|FL215142
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACACG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211380723|gb|FL215217.1|FL215217
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATG
EST: gi|211378069|gb|FL215200.1|FL215200
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|149083358|gb|EE172656.2|EE172656
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|149074901|gb|EE163349.2|EE163349
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211383347|gb|FL215220.1|FL215220
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211246147|gb|FL215147.1|FL215147
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATG
EST: gi|149000083|gb|EE037198.2|EE037198
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211248390|gb|FL215167.1|FL215167
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|60396669|gb|DN229537.1|DN229537
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211250624|gb|FL215187.1|FL215187
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211250622|gb|FL215185.1|FL215185
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|67021395|gb|CO450144.1|CO450144
EST:     TGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: TGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211378065|gb|FL215196.1|FL215196
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211243915|gb|FL215135.1|FL215135
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCG
EST: gi|33092579|gb|CF052573.1|CF052573
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211248395|gb|FL215172.1|FL215172
EST:     CTTGTGAAGAATAAGATTCCATCCAACCTCTATAATCAGTTGGCTACAGG                         CTTGCTATGCGTGAAG
genomic: CTTGTGAAGAATAAGAT-CCATCCAACCTCTATAATCAGT-GGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAG
EST: gi|211250623|gb|FL215186.1|FL215186
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAA
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAA
EST: gi|211243912|gb|FL215132.1|FL215132
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211248385|gb|FL215162.1|FL215162
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|71437844|gb|DR818894.1|DR818894
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211243910|gb|FL215130.1|FL215130
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211378067|gb|FL215198.1|FL215198
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAA
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAA
EST: gi|31557915|gb|CD527127.1|CD527127
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211250613|gb|FL215176.1|FL215176
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211383348|gb|FL215221.1|FL215221
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211383351|gb|FL215224.1|FL215224
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGA
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGA
EST: gi|211378068|gb|FL215199.1|FL215199
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211241686|gb|FL215128.1|FL215128
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211250614|gb|FL215177.1|FL215177
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAAGT-AGCAGTCA-
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAA-GTTAGCAGTCAA
EST: gi|61119168|gb|DN560129.1|DN560129
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211243913|gb|FL215133.1|FL215133
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG
EST: gi|211248389|gb|FL215166.1|FL215166
EST:     ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGG                         CTTGCTATGCGT
genomic: ATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGT

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: 434

AGAGGCAATGATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 200

AGAGGCAATGATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 224

AGAGGCAATGATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 144

AGAGGCAATGATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttacc ... actctgccagCTTGCTATGCGTGAAGCCTGCAAATATGTTGAGGAAAAGTTAGCAGTCAAG


Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGGCAATGATCTTGTGAAGAATAAGATCCATCCAACCTCTATAATCAGTGGCTACAGGgtgtgttaccaagtctcgttgtaacagtagtggtatttgaattttaaatggtcatttccatggcttacctttgtggaatgttttttctatactctgccag

- - - - - - - - TGAAGA