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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtattagtttcctgatttagagtaagaggcagaacaatctatctttattttcataccaaagataccttcgggttctgatcaactccgaccatgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAAGGCCTTCGAAGGAGTTCCTGCACCTTACGATAAGATGAAGAGGATGGTT

Basic information

species Physcomitrella patens
transcript PP1S80_110V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S80_110V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G090422_T01 (Zea mays), 3'ss of exon 1
agtattagtttcctgatttagagtaagaggcagaacaatctatctttattttcataccaaagataccttcgggttctgatcaactccgaccatgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAAGGCCTTCGAAGGAGTTCCTGCACCTTACGATAAGATGAAGAGGATGGTT
 ||||         |       |   |   | |    || | |   |     | | |           |  || |    |   ||  | |    |||||| ||||||||||||||||||||||| || |  || || || | | | || ||| | | ||| || || ||  | || ||||| ||||  ||| | ||||| 
-gtatgtcagcaacgccacgccgcccggatccgtctgatttcttccttgcgacgtgctttgtggcttgtgaggcttatgtttgctgtggctgatttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGTATGGTC

upper sequence: PP1S80_110V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G072315_T03 (Zea mays), 3'ss of exon 1
agtattagtttcctgatttagagtaagaggcagaacaatctatctttattttcataccaaagataccttcgggttctgatcaactccgaccatgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAAGGCCTTCGAAGGAGTTCCTGCACCTTACGATAAGATGAAGAGGATGGTT
 |||       ||||  |          ||    |   |    | |  ||||    |    || |  |  | || |||        ||    | |||||| ||||||||||||||||||||||| || |  || || || | | | || ||| | | ||| || || ||  | || ||||| ||||  ||| |  |||| 
-gtaagcaacacctgcctggatccgtccggtttcattttgccacgtcctttttg-gctggtgagatttatgcgtgctg--------cgtttgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTC

upper sequence: PP1S80_110V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G072315_T01 (Zea mays), 3'ss of exon 1
agtattagtttcctgatttagagtaagaggc--agaacaatctatctttatttt--cataccaaagatacct--tcgggttctgatcaactccgaccatgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAAGGCCTTCGAAGGAGTTCCTGCACCTTACGATAAGATGAAGAGGATGGTT
             ||  | ||    |   ||   || |  ||    || |||||  ||   |     |  ||  |  | ||        || ||    | |||||| ||||||||||||||||||||||| || |  || || || | | | || ||| | | ||| || || ||  | || ||||| ||||  ||| |  |||| 
------------gtgtgtaagcaacacctgcctggatccgtccggtttcattttgccacgtcctttttggctggtgagatttatgcgtgctgcgtttgttttgcagGATGATTCCGCACAAGACCAAGAGGGGGGAGGCGGCTCTGGCGAGGCTCAAGACGTACGAGGGCGTCCCGCCGCCGTACGACAAGACCAAGCGCCTGGTC

upper sequence: PP1S80_110V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT3G07110.1 (Arabidopsis thaliana), 3'ss of exon 1
agtattagtttcctgatttag-agtaagaggcagaacaatctatctttattttcataccaaagatacct--tcgggttctga----tcaactccgaccatgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAAGGCCTTCGAAGGAGTTCCTGCACCTTACGATAAGATGAAGAGGATGGTT
        |||  || ||| | |||   |    |   | | | | ||| || |   |  |||  | ||   || | |  |||    |    |  |    ||| ||||||||||||| |||||||| ||| | ||||||  ||| ||||  ||| |||||| ||| |||||||||||| | || || || ||||| ||||||||||| 
-------ctttgatgtttttgtagttgtacaatgtgtagtttttgttttttgtttgagaaaatgtgccaaatccgatgttgaattgttgtttttgtttgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAAGGTCTTTGAAGGAGTTCCTACTCCATATGACAAGATCAAGAGGATGGTC

upper sequence: PP1S80_110V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv07s0005g06490.t01 (Vitis vinifera), 3'ss of exon 1
agtattagtttcctgatttagagtaagaggcagaacaatctatctttattttcataccaaagataccttcg--ggttctgatcaactccgaccatgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAAGGCCTTCGAAGGAGTTCCTGCACCTTACGATAAGATGAAGAGGATGGTT
  | || ||  |   |  |    |      ||  |    | ||    |  || ||  |||   |   ||    |  | |  |    |  |    | ||| || ||||||||||||||||||||| | ||||| || |||||||  ||  ||||||| |  || ||| | ||| |||| || |||||||||||||||||||| 
-attttggtgcctgtacctttccttcacttcattaggtaccatacagagcttaatttcaacactgtttttaatgaatttttttggttttgttt-tattgtagGATGATTCCGCACAAGACCAAGCGTGGAGCAGCAGCCCTTGCACGATTGAAGGCTTATGAGGGAATCCCTCCACCATATGATAAGATGAAGAGGATGGTC

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|18346037|gb|BJ178080.1|BJ178080
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|67576930|gb|BJ949754.1|BJ949754
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18344723|gb|BJ176764.1|BJ176764
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37830266|gb|BJ588278.1|BJ588278
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18361020|gb|BJ193084.1|BJ193084
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18350930|gb|BJ182981.1|BJ182981
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|162230875|gb|FC406714.1|FC406714
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37823490|gb|BJ581556.1|BJ581556
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|162269648|gb|FC444866.1|FC444866
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37821925|gb|BJ579991.1|BJ579991
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|162269649|gb|FC444867.1|FC444867
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|67709300|gb|BJ965116.1|BJ965116
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18343222|gb|BJ175260.1|BJ175260
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|67719275|gb|BJ969534.1|BJ969534
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37822426|gb|BJ580492.1|BJ580492
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37838910|gb|BJ596918.1|BJ596918
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18344296|gb|BJ176336.1|BJ176336
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37822078|gb|BJ580144.1|BJ580144
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37823928|gb|BJ581994.1|BJ581994
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18361497|gb|BJ193563.1|BJ193563
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18373955|gb|BJ205533.1|BJ205533
EST:     CCGATTCATTTTCGATACCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18351134|gb|BJ183185.1|BJ183185
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37824869|gb|BJ582935.1|BJ582935
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|67718710|gb|BJ968969.1|BJ968969
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18372403|gb|BJ204005.1|BJ204005
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37825155|gb|BJ583221.1|BJ583221
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|162268068|gb|FC443538.1|FC443538
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|67574606|gb|BJ947430.1|BJ947430
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|67727577|gb|BJ977836.1|BJ977836
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|67698024|gb|BJ958257.1|BJ958257
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37830473|gb|BJ588485.1|BJ588485
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18339094|gb|BJ171120.1|BJ171120
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18342779|gb|BJ174815.1|BJ174815
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|162230018|gb|FC405958.1|FC405958
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|18341036|gb|BJ173069.1|BJ173069
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|162230876|gb|FC406715.1|FC406715
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|37839204|gb|BJ597212.1|BJ597212
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
EST: gi|162268067|gb|FC443537.1|FC443537
EST:     CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGG                         TATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA
genomic: CCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAA

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: 42

AATATCTGAGGTTTTTGAGGAAGAGGATGAACACCAAGCCCAGCAAGGGCCCGATTCATTTTCGATCCCCAGCACGTATCTTGTGGAGGACCATCCGCGGgtaagtgtct ... catgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAAGGCCTTCGAAGGAGTTCCTGCACCTTACGATAAGATGAAGAGGATGGTT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattttcataccaaagataccttcgggttctgatcaactccgaccatgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAAGGCCTTCGAAGGAGTTCCTGCACCTTACGATAAGATGAAGAGGATGGTT
                            ttctgat  putative branch site (score: 42)
             aaagata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtattagtttcctgatttagagtaagaggcagaacaatctatctttattttcataccaaagataccttcgggttctgatcaactccgaccatgttgcagTATGATTCCGCACAAGACCAAGAGAGGAGCTGCTGCCCTTGAGCGCCTGAAGGCCTTCGAAGGAGTTCCTGCACCTTACGATAAGATGAAGAGGATGGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
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