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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttgtcgtttcctaagcatttacgaattaacacgcttgattgagactgtattttatagtggaagtggttgatctaataatacacaatgcatttgaggtcaataatattgcacttactgcctggccacttgctcacattgctatttggaaggaagttacatcagaatggaattaatgtttccttaattcagGGTGGGGGTCCTTACTACCTGATAGGACGGGCACTTGGTCCTGAGGTTGGTGTGAGTATTGGTCTCTGTTTCTTCCTTGGAAACGCTGTGGCTGCCGCAA

Basic information

species Physcomitrella patens
transcript PP1S139_48V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S139_48V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os01g19850.1 (Oryza sativa), 3'ss of exon 4
gtttgttgtcgtttcctaagcatttacgaattaacacgcttgattgagactgtattttatagtggaagtggttgatctaataatacacaatgcatttgaggtcaataatattgcacttactgcctggccacttgctcacattgctatttggaaggaagttacatcagaatggaattaatgtttccttaa---ttcagGGTGGGGGTCCTTACTACCTGATAGGACGGGCACTTGGTCCTGAGGTTGGTGTGAGTATTGGTCTCTGTTTCTTCCTTGGAAACGCTGTGGCTGCCGCAA
                                                                                                ||| ||  |  ||||  |||  |   ||     |     | || || | |  | |    |   ||||   | |  || | |   ||   ||      ||||||||| || |||||||| || || ||  ||||||||||||| || ||||| || ||||||||  | |||||||||||||| || || || || |  || |
----------------------------------------------------------------------------------------------gatgatgtatagcatatc-caccaagaaccaccatataaattaacctttccaccttgctcaa--ctacaaatggactgactcatctttctttttgaccctcagGGTGGTGGCCCTTACTATCTCATTGGCAGGGCACTTGGTCCGGAAGTTGGAGTTAGTATTGGATTGTGTTTCTTCCTTGGGAATGCAGTTGCCGGAGCTA

upper sequence: PP1S139_48V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA15G22520.1 (Glycine max), 3'ss of exon 3
gtttgttgtcgtttcctaagcatttacgaattaacacgcttgattgagactgtattttatagtggaagtggttgatctaataatacacaatgcatttgaggtcaataatattgcacttactgcctggccacttgctcacattgctatttggaaggaagttacatcagaatggaattaa--tgtttccttaattcagGGTGGGGGTCCTTACTACCTGATAGGACGGGCACTTGGTCCTGAGGTTGGTGTGAGTATTGGTCTCTGTTTCTTCCTTGGAAACGCTGTGGCTGCCGCAA
                                                                                              ||||     |  ||    |   || |  ||     |  | || |   |   | |    |  || | | || ||  | | |||    ||| |      |  |||||||||| |||||||| || ||||| || || ||||||||||| ||||| || || |||||||| || || ||||| ||||| ||||| || |  ||| 
----------------------------------------------------------------------------------------------tttgtaaaaagaaaagcagttttttccccccaaaaaaat-ctaattctaacactcattaataattgatat-agtttagtattttcttgtgtatgctctgtagGGTGGGGGACCTTACTATCTCATAGGCCGTGCCCTTGGTCCTGAAGTTGGAGTTAGCATTGGTCTATGCTTTTTCCTGGGAAATGCTGTTGCCGGAGCAC

upper sequence: PP1S139_48V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA09G10390.1 (Glycine max), 3'ss of exon 4
gtttgttgtcgtttcctaagcatttacgaattaacacgcttgattgagactgtattttatagtggaagtggttgatctaataatacacaatgcatttgaggtcaataatattgcacttactgcctggccacttgctcacattgctatttggaaggaagttacatcagaatggaattaatgtttccttaattcagGGTGGGGGTCCTTACTACCTGATAGGACGGGCACTTGGTCCTGAGGTTGGTGTGAGTATTGGTCTCTGTTTCTTCCTTGGAAACGCTGTGGCTGCCGCAA
                                                                                        || ||| || |    || ||    |||  | ||  |  ||   ||    |   | |||||   ||   |  ||  | || ||    ||  ||| |   |  |  |||||||||| |||||||| || ||||| || || ||||||||||| ||||| || || |||||||| || || ||||| ||||| ||||| || |  ||| 
----------------------------------------------------------------------------------------aaagcagtttattaaaaaaaagaagcaaatcctaacatgca--ttaagtaggct-ctattaataaatgatatagtttagtatt---ttcttgtgtatgttctgtagGGTGGGGGACCTTACTATCTCATAGGCCGTGCCCTTGGTCCTGAAGTTGGAGTTAGCATTGGTCTATGCTTTTTCCTGGGAAATGCTGTTGCCGGAGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgctatttggaaggaagttacatcagaatggaattaatgtttccttaattcagGGTGGGGGTCCTTACTACCTGATAGGACGGGCACTTGGTCCTGAGGTTGGTGTGAGTATTGGTCTCTGTTTCTTCCTTGGAAACGCTGTGGCTGCCGCAA
                                       tgtttcctt  CT-rich tract
                                 aattaatgttt  TA-rich tract