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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcatctattcctcacatttgcaatcagaatgtaccataactggcaattcgtctctttattgtgtttcttggttatacttctcgttaagattgtgaaccgtatatatatatatatattttcttttctttttttgttttaagaaatgaactacctgtaaattcgattgtaatgcagGCATATGAGAAAGGACTGATGATTGCAATTATTCCTTTCACATCCAAG

Basic information

species Physcomitrella patens
transcript PP1S85_31V6.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S85_31V6.1 (Physcomitrella patens), 3'ss of exon 20
lower sequence: LOC_Os03g01240.1 (Oryza sativa), 3'ss of exon 19
gttagcatctattcctcacatttgcaatcagaatgtaccataactggcaattcgtctctttattgtgtttcttggttatacttctcgttaagat-tgtgaaccgtatatatatat-atatattttcttttctttttttgttttaagaaatgaactacctgtaaattcgattgtaatgcagGCATATGAGAAAGGACTGATGATTGCAATTATTCCTTTCACATCCAAG
                                                                               |      | ||  || ||  |  |   || | | || ||  |   |  |     | |||| |||   ||    || | ||     || |||     | |||||||||||||||||||||||||| ||| | ||||| ||||| || |||
-------------------------------------------------------------------------------aagatatgatagtatgtgcaacacaattacaaaaattatgcagcattatgcaagtatttgctttcc-aatcagacaatcttgtcttttgatctgttttcagGCATATGAGAAAGGACTGATGATAGCAGTCATTCCATTCACTTCAAAG

upper sequence: PP1S85_31V6.1 (Physcomitrella patens), 3'ss of exon 20
lower sequence: GRMZM2G435765_T02 (Zea mays), 3'ss of exon 2
gttagcatctattcctcacatttgcaatcagaatgtaccataactggcaattcgtctctttattgtgtttcttggttatacttctcgttaagattgtgaaccgtatatatatatatatattttcttttctttttttgttttaagaaatga-actacctgtaaattcgattgtaatgcagGCATATGAGAAAGGACTGATGATTGCAATTATTCCTTTCACATCCAAG
                                                                            | || || | | ||| |||      | |    |  | || | |||  |||   |   ||   |||      | | | |   || | | |   || |  | |||||||||||||||||| ||||||||||  | || || ||||| || |||
---------------------------------------------------------------------------ctgtattttttggtaaaatttatgtgcttcctgaggtgtaca-attcacttcaatcgattcaatttgtctgctcataatctttggagaat---tttttcttcagGCATATGAGAAAGGATTGATGATTGCGGTCATACCATTCACTTCAAAG

upper sequence: PP1S85_31V6.1 (Physcomitrella patens), 3'ss of exon 20
lower sequence: GRMZM2G419699_T01 (Zea mays), 3'ss of exon 3
gttagcatctattcctcacatttgcaatcagaatgtaccataactggcaattcgtctctttattgtgtttcttggttatacttctcgttaagattgtgaaccgtatatatatatatatattttcttttctttttttgttttaagaaatgaactacctgtaaattcgattgtaatgcagGCATATGAGAAAGGACTGATGATTGCAATTATTCCTTTCACATCCAAG
                                                               ||||||| ||||| | | ||    |     |  |||   ||| | ||  |  |  | |   ||   ||| | || |       || | ||   || | | |   || |  | |||||||||||||||||| ||||||||||  | || || ||||| || |||
--------------------------------------------------------------ctgtgttttttggtaaaattt---atgtgcttcctgaggtgtaca-attcactt-caatcgattcaatttgtctgctc------ataatct--ttggagaat---tttttcttcagGCATATGAGAAAGGATTGATGATTGCGGTCATACCATTCACTTCAAAG

upper sequence: PP1S85_31V6.1 (Physcomitrella patens), 3'ss of exon 20
lower sequence: GRMZM2G481210_T01 (Zea mays), 3'ss of exon 2
gttagcatctattcctcacatttgcaatcagaatgtaccataactggcaattcgtctctttattgtgtttcttggttatacttctcgttaagattgtgaaccgtatatatatatatatattttcttttctttttttgttttaagaaatgaactacctgtaaattcgattgtaatgcagGCATATGAGAAAGGACTGATGATTGCAATTATTCCTTTCACATCCAAG
                                                               ||||||| ||||| | | ||    |   | |  |||   ||| | ||  |  |  | |   ||   ||| | || |       || | ||   || | | |   || |  | |||||||||||||||||| ||||||||||  | || || ||||| || |||
--------------------------------------------------------------ctgtgttttttggtaaaattt---atgtggttcctgaggtgtaca-attcactt-caatcgattcaatttgtctgctc------ataatct--ttggagaat---tttttcttcagGCATATGAGAAAGGATTGATGATTGCGGTCATACCATTCACTTCAAAG

upper sequence: PP1S85_31V6.1 (Physcomitrella patens), 3'ss of exon 20
lower sequence: GRMZM2G179406_T01 (Zea mays), 3'ss of exon 6
gttagcatctattcctcacatttgcaatcagaatgtaccataactggcaattcgtctctttattgtgtttcttggttatacttctcgttaagattgtgaaccgtatatatatatatatattttcttttctttttttgttttaagaaatga-actacctgtaaattcgattgtaatgcagGCATATGAGAAAGGACTGATGATTGCAATTATTCCTTTCACATCCAAG
                                                                              || || | | ||| |||      | |    |  | || | |||  |||   |   ||   |||      | | | |   || | | |   || |  | |||||||||||||||||| ||||||||||  | || || ||||| || |||
---------------------------------------------------------------------------cagtattttttggtaaaatttatgtgcttcctgaggtgtaca-attcacttcaatcgattcaatttgtctgctcataatctttggagaat---tttttcttcagGCATATGAGAAAGGATTGATGATTGCGGTCATACCATTCACTTCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttctttttttgttttaagaaatgaactacctgtaaattcgattgtaatgcagGCATATGAGAAAGGACTGATGATTGCAATTATTCCTTTCACATCCAAG
      tttttttgttttaaga  TA-rich tract