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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggtcgtctaccagcattccgcatattcacatttatcttactcgctgaacatccatcactgcttttctaattcacatttctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGCTTTTCTCCTCCGCAAGTAGAAGGATCAAAGGAGATTAGCAAGGAGGAAG

Basic information

species Oryza sativa
transcript LOC_Os08g06110.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g06110.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G474769_T01 (Zea mays), 3'ss of exon 3
gtggtcgtctaccagcattccgcatattcacatttatcttactcgctgaacatccatcactgcttttctaattcacatttct-gctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGCTTTTCTCCTCCGCAAGTAGAAGGATCAAAGGAGATTAGCAAGGAGGAAG
|| ||  ||||||| || |  ||  |||||| | |  |  |  |  ||| ||| |  |||||| |||||||||||| ||| | | || |||||||||||||||||  |||| |||||||||||||||| |||||| |||||||||||||| || |||| |||||| || |||||  || |||||||||| |
gttgtaatctaccaacactatgccaattcac-tctgcccaaacctttgagcatgccgcactgcctttctaattcactttttttgttggcagGGTCGTCTGGCTTTCCATGCGCTGTTCAGTAGAGAAAAGCTTCCGCAAAGCTTTTCTCCCCCACAAGCAGAAGGCTCGAAGGAAGTTGGCAAGGAGGAGG

upper sequence: LOC_Os08g06110.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G014902_T01 (Zea mays), 3'ss of exon 10
gtggtcgtctaccagcattccgcatattcacatttatcttactcgctgaacatccatcactgcttttctaattcacatttctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGCTTTTCTCCTCCGCAAGTAGAAGGATCAAAGGAGATTAGCAAGGAGGAAG
|| ||  ||||||| || |  ||  |||||| | | ||  | |   ||| ||  ||||| ||| ||||| |||||| | | || || ||||||||||||||||| ||||| ||||||||||| |||| |||||| |||||||||||||| || |||| || ||  || |||||| ||  ||||||||| |
gttgtaatctaccaacaatatgctaattcac-tctgtccaaatttttgagcacgcatcattgcctttctgattcacttctttgttgacagGGTCGTCTGGCTTTCGATGCGCTGTTCAGTAGGGAAAAGCTTCCGCAAAGCTTTTCTCCCCCACAAGCAGTAGACTCGAAGGAGGTTGCCAAGGAGGAGG
















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|4716564|gb|AU057680.1|AU057680
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|33681251|gb|CF309490.1|CF309490
EST:     TAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGG-AAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|66914368|gb|CX101216.1|CX101216
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29623820|gb|CB628831.1|CB628831
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|33381235|gb|CF196578.1|CF196578
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29630693|gb|CB635702.1|CB635702
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29676889|gb|CB673164.1|CB673164
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|116875605|gb|EC366113.1|EC366113
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAGGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|86521919|gb|CI162125.1|CI162125
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29615309|gb|CB620321.1|CB620321
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|58689455|gb|CK078142.1|CK078142
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|38476199|gb|CF960332.1|CF960332
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTCTCTGAAGAG                         GGTCGTCTGGCTT
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTT
EST: gi|87015175|gb|CI273573.1|CI273573
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29620394|gb|CB625406.1|CB625406
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29613168|gb|CB618181.1|CB618181
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29643683|gb|CB648690.1|CB648690
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|33381053|gb|CF196396.1|CF196396
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGANGNN                         NNTCGTCTGGCTTTTGATGCACT
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACT
EST: gi|29613822|gb|CB618835.1|CB618835
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|86858653|gb|CI273170.1|CI273170
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29674994|gb|CB671269.1|CB671269
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|88198545|gb|CI198395.1|CI198395
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29677550|gb|CB673825.1|CB673825
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|88198770|gb|CI198620.1|CI198620
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|86480232|gb|CI122865.1|CI122865
EST:     AGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCTAAGC
genomic: AGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|38477816|gb|CF961949.1|CF961949
EST:     AGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGC-TTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: AGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|27578139|gb|CB000834.1|CB000834
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|38475445|gb|CF959578.1|CF959578
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29612985|gb|CB617998.1|CB617998
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29626842|gb|CB631853.1|CB631853
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29685074|gb|CB681349.1|CB681349
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29624812|gb|CB629823.1|CB629823
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29680231|gb|CB676506.1|CB676506
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29622093|gb|CB627104.1|CB627104
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29628511|gb|CB633522.1|CB633522
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|87022804|gb|CI269740.1|CI269740
EST:     ATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCGAAGC
genomic: ATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29687650|gb|CB683925.1|CB683925
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29616327|gb|CB621339.1|CB621339
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|87037377|gb|CI191999.1|CI191999
EST:     TTAGGAGCAGTGCGAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|58654893|gb|CK043573.1|CK043573
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCA
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCA
EST: gi|29613864|gb|CB618877.1|CB618877
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29618417|gb|CB623429.1|CB623429
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29620395|gb|CB625407.1|CB625407
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|58656274|gb|CK044954.1|CK044954
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGT
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGT
EST: gi|29628022|gb|CB633033.1|CB633033
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29613896|gb|CB618909.1|CB618909
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|58695447|gb|CK084134.1|CK084134
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|4716565|gb|AU057681.1|AU057681
EST:     TAGGAGCCAGTGCAAGCACAAGTGATTC-TGGAAGGAAGTTTCTGAAGA-                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TAGGAG-CAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|29617771|gb|CB622783.1|CB622783
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|58670902|gb|CK059588.1|CK059588
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
EST: gi|38468322|gb|CF952453.1|CF952453
EST:     TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAG                         GGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC
genomic: TTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGC

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: 74 (upstream exon), 73 (downstream exon)
Score: 146

GCAAGCATCTTGCAGTAACTCTTCAGCCGGTGACAATAACCACCGTAGATTTAGGAGCAGTGCAAGCACAAGTGATTCATGGAAGGAAGTTTCTGAAGAGgtggtcgtct ... ctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGCTTTTCTCCTCCGCAAGTAGAAGGATCAAAGGAGATTAGCAAGGAGGAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttactcgctgaacatccatcactgcttttctaattcacatttctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGCTTTTCTCCTCCGCAAGTAGAAGGATCAAAGGAGATTAGCAAGGAGGAAG
                              ttctaat  putative branch site (score: 146)
                                          tttctgct  putative PPT
                            ttttctaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtggtcgtctaccagcattccgcatattcacatttatcttactcgctgaacatccatcactgcttttctaattcacatttctgctgtcagGGTCGTCTGGCTTTTGATGCACTGTTCAGTAGAGAAAGGCTTCCCCAAAGCTTTTCTCCTCCGCAAGTAGAAGGATCAAAGGAGATTAGCAAGGAGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA