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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtagtcacttggtgctaaatgataggtaaagaaaaggtcgttagtgtgggtggtgtagtagataaagcttaattttgcaactaagtgttttcattgcagCAATTGATGGTAGTGGTGGCTTCGCAGGAGTTCGTCAAAGAAGTGGATCCAGATATTATTATTGGATATAATATTTGTAAATTTGACTTACCCTATCTTA

Basic information

species Physcomitrella patens
transcript PP1S14_182V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os11g08330.1 (Oryza sativa), 3'ss of exon 7
tgtagtcacttggtgctaaatgataggtaaagaaaaggtcgttagtgtgggtggtgtagtagataaagcttaattttgcaactaagtgttttcattgcagCAATTGATGGTAGTGGTGGCTTCGCAGGAGTTCGTCAAAGAAGTGGATCCAGATATTATTATTGGATATAATATTTGTAAATTTGACTTACCCTATCTTA-----
                                              ||  ||  ||   | | |  || |||     |  ||  ||   || |     | |||  | || |  || |   ||| ||||| ||| |    |||||||| || ||||||||||||||||| ||||| || ||||||||||||||||||||||     
----------------------------------------------gtaagtaatgc--tggttggagtttacaacaggtacacagaacttactaaaaaccaa--gctgattctgattctttc-cagGATTTCATACGTGAAGTGGACCCTGATATTATTATTGGATACAATATCTGCAAATTTGACTTACCCTATCTTATTGAG

upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: AC196278.2_FGT004 (Zea mays), 3'ss of exon 3
tgtagtcacttggtgctaaatgataggtaaagaaaaggtcgttagtgtgggtggtgtagtagataaagcttaattttgcaactaagtgttttcattgcagCAATTGATGGTAGTGGTGGCTTCGCAGGAGTTCGTCAAAGAAGTGGATCCAGATATTATTATTGGATATAATATTTGTAAATTTGACTTACCCTATCTTA-----
   |  |||||  | || ||    || |||| | |   || ||| ||| |     | | | |    |    |||| |   |       || | |||           ||| | |  |    | |||||| ||| |    ||||||||||| ||||| || |||||||| || ||||| ||||||||| | ||||||||||     
-aaacacacttattcctgaaaagaagttaaatacattttc-ttattgtagacaaaggacttggccgaa---aattatctga-------ttcttatt-----------tggaaataat----ttgcagGATTTCATACGTGAAGTGGATCCTGATATCATAATTGGATACAACATTTGCAAATTTGACATGCCCTATCTTATTGAG

upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA04G38800.1 (Glycine max), 3'ss of exon 7
tgtagtcacttggtgctaaatgataggtaaagaaaaggtcgttagtgtgggtggtgtagtagataaagcttaattttgcaactaagtgttttcattgcagCAATTGATGGTAGTGGTGGCT---TCGCAGGAGTTCGTCAAAGAAGTGGATCCAGATATTATTATTGGATATAATATTTGTAAATTTGACTTACCCTATCTTA-----
                       |   ||      |  | | || |||   || || |  |  || |      |||  | | ||   | | | || |      |||||||  | |||   |   | |||||| ||  |    |||||||| || ||||||||||||||||| || ||||| ||||||||||| || |||||||     
---------------------cttgaatacgagtcaatttgataatgtaactgttgaatgaattacaatcc--tttctctatta--cgctcttatagt-----ttgatggacgcggttttttaattgcagGATTTTATTCGTGAAGTGGACCCTGATATTATTATTGGATACAACATTTGCAAATTTGACTTGCCATATCTTATTGAG

upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA06G16110.2 (Glycine max), 3'ss of exon 7
tgtagtcacttggtgctaaatgataggtaaagaaaaggtcgttagtgtgggtggtgtagtagataaagcttaattttgcaactaagtgttttcattgcagCAATTGATGGTAGTGGTGGCT---TCGCAGGAGTTCGTCAAAGAAGTGGATCCAGATATTATTATTGGATATAATATTTGTAAATTTGACTTACCCTATCTTA-----
               || |||   | |        |  | | || |||   || ||      || ||   ||||  |    |||    || |  ||  ||   |||||||  ||| |   |   | |||||| ||  |    |||||||| || ||||||||||||||||| || || || ||||||||||| || |||||||     
---------------ctgaatatcatg----agtcaatttgataatgtaactgttg-----aatgaattataatcctttctcta----ttatgcttatagt--ttgatggacgtgatttttttattgcagGATTTAATTCGTGAAGTGGACCCGGATATTATTATTGGATACAACATCTGCAAATTTGACTTGCCATATCTTATTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgggtggtgtagtagataaagcttaattttgcaactaagtgttttcattgcagCAATTGATGGTAGTGGTGGCTTCGCAGGAGTTCGTCAAAGAAGTGGATCCAGATATTATTATTGGATATAATATTTGTAAATTTGACTTACCCTATCTTA
                      gcttaat  putative branch site (score: 4)
                                           ttttcatt  putative PPT
                 ataaagcttaatttt  TA-rich tract