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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgaatctcctctcccctcctcactccccctactcgcatttttaattcttctcttgattcggcctgacgctggcacctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA

Basic information

species Zea mays
transcript GRMZM2G000393_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G000393_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g07905.2 (Oryza sativa), 3'ss of exon 2
gtgcgaatctcctctcccctcctcactccccctactcgcatttttaattcttctcttgattcggcctgacgctggcacctgg-ttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
||||| |||||  | || |||| | | |  |    |    ||||    |    |  | | |  |  ||| | |  | |||   |||||| | ||||||||||| ||||||||||||||||| ||||| || || |||| 
gtgcggatctctccccctctccacccacttctcgttttttttttccgcttgatttgtcagttcgtgtgatggtatcgcctaaattgcagCTTCCGAAGGTGCTGTCGGTGGAGGACAAGCTGAGGAATCTAGGATGCAT
















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|6626361|gb|AW257893.1|AW257893
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211109595|gb|FL330293.1|FL330293
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211264751|gb|FL317287.1|FL317287
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211262310|gb|FL317272.1|FL317272
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAG-TGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211070150|gb|FL344929.1|FL344929
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211035632|gb|FL325397.1|FL325397
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAG-TGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211208342|gb|FL339681.1|FL339681
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAG-TGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211177142|gb|FL336670.1|FL336670
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAG-TGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211537774|gb|FL336420.1|FL336420
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211507519|gb|FL321825.1|FL321825
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211335749|gb|FL352451.1|FL352451
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|21843330|gb|BQ703911.1|BQ703911
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGTTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211130919|gb|FL136657.1|FL136657
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAG-TGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211061191|gb|FL322363.1|FL322363
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211312454|gb|FL348222.1|FL348222
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211365022|gb|FL342943.1|FL342943
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211257460|gb|FL317713.1|FL317713
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211309691|gb|FL309467.1|FL309467
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211492170|gb|FL337340.1|FL337340
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211308207|gb|FL338834.1|FL338834
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAG-TGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211211310|gb|FL358291.1|FL358291
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|21390137|gb|BQ528186.1|BQ528186
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211401858|gb|FL337637.1|FL337637
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|78090931|gb|DV519305.1|DV519305
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211281262|gb|FL322093.1|FL322093
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211340421|gb|FL351902.1|FL351902
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211183427|gb|FL326865.1|FL326865
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211510671|gb|FL361525.1|FL361525
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211378656|gb|FL357034.1|FL357034
EST:     CGCAGWCCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGAC
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGAC
EST: gi|211263236|gb|FL358750.1|FL358750
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211283190|gb|FL330913.1|FL330913
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211015023|gb|FL312922.1|FL312922
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211439880|gb|FL309180.1|FL309180
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211120329|gb|FL321087.1|FL321087
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211135055|gb|FL315830.1|FL315830
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211425180|gb|FL347842.1|FL347842
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAG-TGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|76015038|gb|DT942208.1|DT942208
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211528488|gb|FL328390.1|FL328390
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211507246|gb|FL308755.1|FL308755
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|22819731|gb|BU499821.1|BU499821
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211430698|gb|FL357575.1|FL357575
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAG-TGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211543122|gb|FL312498.1|FL312498
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211325278|gb|FL366950.1|FL366950
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211155637|gb|FL334262.1|FL334262
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|211222355|gb|FL320279.1|FL320279
EST:     CGCAGACCCGGGCGATCCTGTCCGGSCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAAGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTG
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTG
EST: gi|149084753|gb|EE174248.2|EE174248
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
EST: gi|71448461|gb|DR829511.1|DR829511
EST:     CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGC                         GTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCCA
genomic: CGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA

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: 78

TTTGTGGCAGGACGCGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 140

TTTGTGGCAGGACGCGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 138

TTTGTGGCAGGACGCGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 183

TTTGTGGCAGGACGCGCAGACCCGGGCGATCCTGTCCGGCCTCCTCGAGAAGAGCTCTACCAGCgtgcgaatct ... ctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actcgcatttttaattcttctcttgattcggcctgacgctggcacctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA
                              gcctgac  putative branch site (score: 183)
      atttttaattcttct  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgaatctcctctcccctcctcactccccctactcgcatttttaattcttctcttgattcggcctgacgctggcacctggttgcagGTCCCGAAGGTGCTCTCGGTGGAGGACAAGCTTAGGAACCTTGGGTGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT