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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgcaatgttgtgactgtatcactatgctgggactaactgggttcgatcttcacgttgattttgatgatttatttaacacagtatttttcaattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAGTAGTTCTTACCACCACCAAGACCAAGAAGAGGAACCAGCCCGCTAAGTT

Basic information

species Physcomitrella patens
transcript PP1S7_390V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S7_390V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G394827_T03 (Zea mays), 3'ss of exon 2
---------gtattgcaatgttgt--gactgtatcactatgctg-ggactaactgggttcgatcttcacgttgattttgatgatttatttaacac----------agtatttttcaattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGC---AGAAGGTCTTTCAGTAGTTCTTACCACCACCAAGACCAAGAAGAGGAACCAGCCCGCTAAGTT
         ||  | ||| |||    || ||| | | | |  ||   |   |     |  ||||||     | |   | || | |   ||    |           |   ||||    | ||||||||||||||||||||||||||| | |||   || ||   | | |      | || || ||  | || |||||||||||||||  ||||   || || ||   
gtatgttgcgtccttcaaagtttctggattgtctaattgtcgtgtatatgtaacacctgtgatcttagtaataaaaataataaatggctttgtgcttactgctctggctgttttgttctgttagGTTTGGCGAACAAGAAGACTGTGACGATCCAGCCAGCTGCAAAGGACTCGGCTGTGGTCCTCTCTACTACCAAGACCAAGAAGCAGAACGCACCTGCGAA---
















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|162238024|gb|FC414240.1|FC414240
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|7207235|gb|AW561238.1|AW561238
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|7693586|gb|AW761620.1|AW761620
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162266567|gb|FC441966.1|FC441966
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|15261317|gb|BI436627.1|BI436627
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|18350844|gb|BJ182895.1|BJ182895
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162238212|gb|FC414298.1|FC414298
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162266524|gb|FC442560.1|FC442560
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162242424|gb|FC418936.1|FC418936
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|19776941|gb|BQ039137.1|BQ039137
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162244752|gb|FC424641.1|FC424641
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|37831210|gb|BJ589222.1|BJ589222
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162215526|gb|FC390591.1|FC390591
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162273394|gb|FC449843.1|FC449843
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162224187|gb|FC399251.1|FC399251
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162258995|gb|FC435938.1|FC435938
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162230246|gb|FC406602.1|FC406602
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162245856|gb|FC419652.1|FC419652
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|67725029|gb|BJ975288.1|BJ975288
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162276380|gb|FC452136.1|FC452136
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|100440207|gb|BY962117.1|BY962117
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162215525|gb|FC390590.1|FC390590
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162259156|gb|FC436437.1|FC436437
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|18368052|gb|BJ200137.1|BJ200137
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTNTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162266566|gb|FC441965.1|FC441965
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|19788170|gb|BQ040732.1|BQ040732
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162241731|gb|FC417258.1|FC417258
EST:     CAGCTCAGAACCGAACAACTCGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|18358218|gb|BJ190277.1|BJ190277
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162206760|gb|FC383233.1|FC383233
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162245857|gb|FC419653.1|FC419653
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162214240|gb|FC390286.1|FC390286
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|18351878|gb|BJ183930.1|BJ183930
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162245466|gb|FC424059.1|FC424059
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|37830173|gb|BJ588185.1|BJ588185
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|37837584|gb|BJ595592.1|BJ595592
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162258994|gb|FC435937.1|FC435937
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|208396046|gb|DC915806.1|DC915806
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|67716512|gb|BJ966772.1|BJ966772
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162207944|gb|FC383650.1|FC383650
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|6227309|gb|AW155908.1|AW155908
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAT                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
EST: gi|162243310|gb|FC417011.1|FC417011
EST:     CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAG                         GTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG
genomic: CAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAG

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: 35 (upstream exon), 35 (downstream exon)
Score: 56

AACAGGTTCTTGGTGAAGAGGAATGGGAACAATAACAATTCTGTTACCTTCAGCTCAGAACCGAACAACTTGTATAACTTGAACACCTTCAAGTACTCAGgtattgcaat ... caattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAGTAGTTCTTACCACCACCAAGACCAAGAAGAGGAACCAGCCCGCTAAGTT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgatcttcacgttgattttgatgatttatttaacacagtatttttcaattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAGTAGTTCTTACCACCACCAAGACCAAGAAGAGGAACCAGCCCGCTAAGTT
                           atttaac  putative branch site (score: 56)
                                      tatttttc  putative PPT
                       atttatttaacacagt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattgcaatgttgtgactgtatcactatgctgggactaactgggttcgatcttcacgttgattttgatgatttatttaacacagtatttttcaattcttagGTTTGGCGAACAAGAAGACTGTGGCCATCGCACCGGCAGAAGGTCTTTCAGTAGTTCTTACCACCACCAAGACCAAGAAGAGGAACCAGCCCGCTAAGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA