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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttcttttcatttatttctaaattttaaccacccttttggtagcttaaggaaaattgtatgtttgacagtcctgttttctgttgtttcatccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCAGCGAGGATAGTGTTACAGTAGGTGATCTGGTTGTGAAAGATCAG

Basic information

species Oryza sativa
transcript LOC_Os05g49200.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G065757_T02 (Zea mays), 3'ss of exon 3
attttcttttcatttat-ttctaaattttaaccacccttttggtagcttaaggaaaattgtatgtttgacagtcctgttttctgttgtttcatccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCAGCGAGGATAGTGTTACAGTAGGTGATCTGGTTGTGAAAGATCAG
 |        |||  |   |||   | || |         |  | |  |   |   |||   |  | |||| |    | || | |||||||| | ||| ||||||||| |||||||| |  ||||| |||||||| |||||||| |||||||| |||||||| |||||| ||||||||||||||||||| ||||||
-tgagaaaagcataaagactctgggtcttcatattgggcatttttgtatgctgtttatttgcttctggacattgacatgttgtcttgtttcaactctctagGAAAACCTGCTGCCATACGCTATGGAACTGGTTCCATTGCTGGTTTTTTCAGTGAGGATAGCGTTACATTAGGTGATCTGGTTGTGAAGGATCAG
















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|25800141|gb|CA756102.1|CA756102
EST:     CTTCCACTCTCGCTACNAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58655126|gb|CK043806.1|CK043806
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58672084|gb|CK060770.1|CK060770
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29639173|gb|CB644182.1|CB644182
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29673512|gb|CB669787.1|CB669787
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29660449|gb|CB656724.1|CB656724
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58656789|gb|CK045469.1|CK045469
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29643320|gb|CB648327.1|CB648327
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29675128|gb|CB671403.1|CB671403
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58668447|gb|CK057133.1|CK057133
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29660445|gb|CB656720.1|CB656720
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58658759|gb|CK047439.1|CK047439
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29657722|gb|CB653997.1|CB653997
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29687486|gb|CB683761.1|CB683761
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58597788|gb|CK008316.1|CK008316
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58670333|gb|CK059019.1|CK059019
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58661737|gb|CK050417.1|CK050417
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGG
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGG
EST: gi|88385492|gb|CI564152.1|CI564152
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29615519|gb|CB620531.1|CB620531
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58663482|gb|CK052168.1|CK052168
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGT
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGT
EST: gi|29669082|gb|CB665357.1|CB665357
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29660989|gb|CB657264.1|CB657264
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29627821|gb|CB632832.1|CB632832
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58694996|gb|CK083683.1|CK083683
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29677506|gb|CB673781.1|CB673781
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|8251272|gb|AU091468.1|AU091468
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29642551|gb|CB647558.1|CB647558
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58670154|gb|CK058840.1|CK058840
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58666874|gb|CK055560.1|CK055560
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|218478948|gb|FG952780.1|FG952780
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGG-TTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58681561|gb|CK070248.1|CK070248
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29636406|gb|CB641415.1|CB641415
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58673918|gb|CK062604.1|CK062604
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|163927035|gb|EG710226.1|EG710226
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29644200|gb|CB649207.1|CB649207
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58673500|gb|CK062186.1|CK062186
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58597894|gb|CK008422.1|CK008422
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGC
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGC
EST: gi|58600047|gb|CK010575.1|CK010575
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58600889|gb|CK011417.1|CK011417
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29664332|gb|CB660607.1|CB660607
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|29681831|gb|CB678106.1|CB678106
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58598940|gb|CK009468.1|CK009468
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTT
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTT
EST: gi|29639939|gb|CB644948.1|CB644948
EST:     CTTCCACTCTCGCTACAGGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
EST: gi|58671799|gb|CK060485.1|CK060485
EST:     CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATG                         GAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA
genomic: CTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCA

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 1 RNA-Seqlibrary.


Block sizes: 61 (upstream exon), 75 (downstream exon)
Score: 145

ATTGCGTGCTTCTTCCACTCTCGCTACAAGTCCGGACAGTCGAGCACTTATCAGAAGAATGgtccgtgcct ... atccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCAGCGAGGATAGTGTTACAGTAGGTGATCTGGTTGTGAAAGATCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttaaggaaaattgtatgtttgacagtcctgttttctgttgtttcatccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCAGCGAGGATAGTGTTACAGTAGGTGATCTGGTTGTGAAAGATCAG
                 gtttgac  putative branch site (score: 145)
                          tcctgttttctgttgt  putative PPT
       aaaattgtatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attttcttttcatttatttctaaattttaaccacccttttggtagcttaaggaaaattgtatgtttgacagtcctgttttctgttgtttcatccctccagGAAAACCAGCTGCCATTCAGTATGGCACTGGTTCAATTGCTGGGTTTTTCAGCGAGGATAGTGTTACAGTAGGTGATCTGGTTGTGAAAGATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - -tttcatt
- - - - - - - - - - - - - - - - - - - - - - - - -aggaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttga