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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgaatttggaaaaaaaagttataagatggaatattctctaaagggattaataatccactcccaaacaaaaaggagtctaatatatcaaatcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGTCGCCGAGCGACGTCGTGCAGCTCTACAAGTCCAACGGCATCGACTCCAT

Basic information

species Oryza sativa
transcript LOC_Os01g71340.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g71340.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G065585_T01 (Zea mays), 3'ss of exon 1
ttgaatttggaaaaaaaagttataagatggaatattctctaaagggattaataatccactcccaaacaaaaag-gagtctaatatatcaaatcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGTCGCCGAGCGACGTCGTGCAGCTCTACAAGTCCAACGGCATCGACTCCAT
        | | |  | |  |||| |            |   |   || |    | ||  |    |  |  |  ||  ||||| |    | |   | ||||  || ||||| |||||||||||||||||||||| |||  ||||||||||  || |||||||||| |||||||| ||| |||||||||||||| ||   ||
--------gtagactatacctatacgtgcatgcgcatcc---acccataatccgtgcatgcatgcatgattattgacactaatgtccttattactaaacagGAGTCCAATCCATCGGCGTGTGCTACGGCGTGAACGGCGACAACCTGCCCCCGGCGAGCGACGTGGTGCAGCTGTACCAGTCCAACGGCATCAACCTGAT
















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|88401938|gb|CI593650.1|CI593650
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGG-TTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88664571|gb|CI699709.1|CI699709
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTANGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|2427713|gb|C72176.1|C72176
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88664452|gb|CI697461.1|CI697461
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88338594|gb|CI656895.1|CI656895
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88573645|gb|CI665414.1|CI665414
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88380789|gb|CI634814.1|CI634814
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|38476620|gb|CF960753.1|CF960753
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88664590|gb|CI699982.1|CI699982
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88664850|gb|CI703671.1|CI703671
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88307201|gb|CI640640.1|CI640640
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|86905933|gb|CI291067.1|CI291067
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|38470614|gb|CF954745.1|CF954745
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88336054|gb|CI647248.1|CI647248
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88574610|gb|CI666379.1|CI666379
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|95101660|gb|CI692336.1|CI692336
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|86905928|gb|CI291062.1|CI291062
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|87023822|gb|CI288175.1|CI288175
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88338565|gb|CI645819.1|CI645819
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88329832|gb|CI651503.1|CI651503
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|117251392|gb|CT844146.1|CT844146
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88959081|gb|CI685804.1|CI685804
EST:     TTCCGTTTTAACANTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88310820|gb|CI659423.1|CI659423
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88313047|gb|CI592331.1|CI592331
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|25800353|gb|CA756314.1|CA756314
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|87011253|gb|CI289523.1|CI289523
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88453660|gb|CI682854.1|CI682854
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|87006412|gb|CI293203.1|CI293203
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88354239|gb|CI637805.1|CI637805
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|86850348|gb|CI305587.1|CI305587
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88369031|gb|CI677880.1|CI677880
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88572765|gb|CI664336.1|CI664336
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88340351|gb|CI652700.1|CI652700
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88308912|gb|CI654195.1|CI654195
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88740434|gb|CI763942.1|CI763942
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88288653|gb|CI663442.1|CI663442
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88571896|gb|CI663269.1|CI663269
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|29662525|gb|CB658800.1|CB658800
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|95101696|gb|CI692971.1|CI692971
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88358006|gb|CI650742.1|CI650742
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88569999|gb|CI661174.1|CI661174
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|29617772|gb|CB622784.1|CB622784
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
EST: gi|88320075|gb|CI671878.1|CI671878
EST:     TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAG                         TGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT
genomic: TTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGT

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: 72 (upstream exon), 74 (downstream exon)
Score: 51

TGGCGCCTGAAAATTATTAAGCGCTTCAAGATGGCAAAGCATGGCGTTGCTTCCGTTTTAACACTGGCATTGGTCCTTGGAGTTGCGGCCATTCCTACAGgtaataattg ... tcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGTCGCCGAGCGACGTCGTGCAGCTCTACAAGTCCAACGGCATCGACTCCAT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattaataatccactcccaaacaaaaaggagtctaatatatcaaatcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGTCGCCGAGCGACGTCGTGCAGCTCTACAAGTCCAACGGCATCGACTCCAT
                              gtctaat  putative branch site (score: 51)
                                 taatatatcaaatcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgaatttggaaaaaaaagttataagatggaatattctctaaagggattaataatccactcccaaacaaaaaggagtctaatatatcaaatcaaacacagTGGTGCAATCTATCGGCGTGTGCTACGGCGTGATCGGGAACAACCTGCCGTCGCCGAGCGACGTCGTGCAGCTCTACAAGTCCAACGGCATCGACTCCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaaa