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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgtttttttcgttactgagttgattgagggagcactgtgcgtgcatttttggtgggtagagttggaagctgttgaacgttatatgggtgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG

Basic information

species Physcomitrella patens
transcript PP1S14_318V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S14_318V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os03g13970.1 (Oryza sativa), 3'ss of exon 1
gtttgtttttttcgttactgagttgattgagggagcactgtg-cgtgcatttttggtgggtagagttggaagctgttgaacgttatatgggtgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG
||| |         |  | |   |   |     ||  |  |  ||   |  | || |      | ||      | ||   |||        |  |   |||||||| ||| ||||||| |||||||| |||||||||||||||||||| || || ||  |  | || || ||||| || || ||  | ||||| || || |
gttcgccgcgcagctcgccgccctccctcccacagatcgatttcgccgagctctgattcacttatttatcgctttttttgcgtggctcccct-ctccgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACTCGCCGTCGCGATTCCAGGCTCAGGCCGACGCCGTCAACCTCATCTGTG

upper sequence: PP1S14_318V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G147671_T02 (Zea mays), 3'ss of exon 1
gtttgtttttttcgttactgagttgattgagggagcactgtgcgtgcatttttggtgggtagagttggaagctgttgaacgttatatgggtgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG
          | ||  |          ||  |   | |  | |||| | |            | |      |  | ||  |   |     |    | |||||||| ||| ||||||| |||||||| |||||||||||||||||||| ||  | ||  |  |||| || || || || |||||  | ||||| || ||||
---------gtacgacatgcgccctgctgccgtttctcgctccgtgaactcgatccccaactaatctcctcccctcgattggctt-----tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACGCCCCGTCGCGGTTCCAGGCGCAGGCCGATGCCGTCAACCTCATATGCG

upper sequence: PP1S14_318V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G039577_T03 (Zea mays), 3'ss of exon 1
----------------------------gtttgtttttttcgttactga-gttg----attgagggagcactgtgcgtgcatttttggtgggtagagttggaagctgttgaacgttatatgggtgtt-ttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG
                             ||  || | |  | ||  |  | ||    |  |    |     | ||    |||| ||           ||   | |   |   |   |     |    |  |||||||||||| ||||| |||||||||| ||||||||| |||| || || ||| | ||  |  ||||    || || ||  | ||  |   | |  | | ||
gtccatatgcatcccctccttccttcctcttccttctatctgctatggctgctgccccaccggtctaatgacgcgcagcgatttctgaccatccc--ctgacggtttgcggtggccgtccaaatccaatcccagGCGACCATGATCTGCGTGGACAACTCGGAGTGGATGAGGAATGGGGACTATCCCCCATCGCGGTTCGCGGCGCAGGCCCACGCCTTCGCCGTCCTCTCCG

upper sequence: PP1S14_318V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA11G08290.1 (Glycine max), 3'ss of exon 1
---gtttgtttttttcgttactgagttgattg-agggagcactgtgcgtgcat------ttttggtgggtagagttggaagctgttgaacgttatatgggtgtttt--acagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG
    |      ||| |  |  || |||||||  ||  ||| |  | |     |      ||||  | | |   |  | ||  | |      || ||| | | | ||  ||||||||| ||| |||| || ||||| || || |||||||| ||||| ||||| || ||| || | |||||||||||||| || ||| | || || || ||||
gtaatcccagatttcccctcgtgcgttgatttcagacagccccataccaatttctagggtttttattgatgttgcggtaacatatgtttgattgtattgctttcttcaacagGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGAGATTACTCTCCTTCTCGATTTCAAGCTCAAGCAGACGCTGTCAATCTCATATGCG

upper sequence: PP1S14_318V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA01G36990.1 (Glycine max), 3'ss of exon 1
---gtttgtttttttcgttactgagttgattgagggagcactgtgcgtgc--atttttgg------tgggtagagtt--ggaagctgttgaa-cgttatatgggtgtttt--acagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG
    |      ||| |  |  || |||||||     |    | |   | |  |||||| |      |   |   |||  || ||| |||    | |  ||| | | | ||  ||||||||| ||| |||| || ||||| || || |||||||| ||||| ||||| || ||| || | |||||||||||||| || ||| | || || |||||||
gtaatccccgatttcccctcgtgcgttgatttcaacaagcttatcattaccaatttttagggttttttcttgatgttgcggtagcagttttttcatcgtattgatttcttcaacagGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGTGATTACTCTCCTTCTCGATTTCAAGCTCAAGCAGACGCTGTGAATCTCATTTGCG

upper sequence: PP1S14_318V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
-------------gtttgtttt---tttcgttactgagttgattgaggga-gcactgtgcgtgcatttttggtgggtagagtt-----ggaagctgttgaacgttatatgggtgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG
              |||  ||    ||| |  | |   ||   | |       ||| |   |    |||       ||| |||           | ||  |  ||  ||   | |  | |||||||| ||| |||| || ||||| || || |||||||| || ||||||||||| || ||||| ||||| |||||||| || ||  | || || || || |
gtatgcctatcctatttacttccacttttgccattctatttcctaatatttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG

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|100381151|gb|BY950004.1|BY950004
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100410542|gb|BY992154.1|BY992154
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100424156|gb|BY958342.1|BY958342
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|67709869|gb|BJ965685.1|BJ965685
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCCGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|67719536|gb|BJ969795.1|BJ969795
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|18372410|gb|BJ204012.1|BJ204012
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|18366328|gb|BJ198407.1|BJ198407
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100399854|gb|BY990655.1|BY990655
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100359179|gb|BY965630.1|BY965630
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|18344610|gb|BJ176651.1|BJ176651
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100422820|gb|BY958017.1|BY958017
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|162270585|gb|FC446510.1|FC446510
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100361055|gb|BY946891.1|BY946891
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100444272|gb|BY982301.1|BY982301
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|67703411|gb|BJ963644.1|BJ963644
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100426210|gb|BY958783.1|BY958783
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100414734|gb|BY956837.1|BY956837
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|67710256|gb|BJ965919.1|BJ965919
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100390114|gb|BY989194.1|BY989194
EST:     TTATTTGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|67702739|gb|BJ962972.1|BJ962972
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100410928|gb|BY956252.1|BY956252
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100449851|gb|CJ973968.1|CJ973968
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|67719741|gb|BJ970000.1|BJ970000
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|18343869|gb|BJ175907.1|BJ175907
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|18357197|gb|BJ189256.1|BJ189256
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|67569334|gb|BJ942158.1|BJ942158
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100449557|gb|CJ973819.1|CJ973819
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|208361374|gb|DC930371.1|DC930371
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100436137|gb|BY979398.1|BY979398
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGGTGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|162195399|gb|FC370868.1|FC370868
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|67716301|gb|BJ966561.1|BJ966561
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100353224|gb|BY945668.1|BY945668
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100400831|gb|BY972965.1|BY972965
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|100381386|gb|BY950102.1|BY950102
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|18375025|gb|BJ206603.1|BJ206603
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|67717273|gb|BJ967532.1|BJ967532
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
EST: gi|18326030|gb|BJ158029.1|BJ158029
EST:     TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAG                         GCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT
genomic: TTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTAT

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), 33 (downstream exon)
Score: 10

GATTGAGTGCGGATCAATTACGCGCTGTTGGAAGTTTTCGTGACCCTGTTTTATTCGTGTGCGATTTGTCTCACGTATCGCCGGCAAGATGGTGCTCGAGgtgagtaatc ... tgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatttttggtgggtagagttggaagctgttgaacgttatatgggtgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG
                                    ttatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtttttttcgttactgagttgattgagggagcactgtgcgtgcatttttggtgggtagagttggaagctgttgaacgttatatgggtgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgaa