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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagtagcatcctagctattctggcttcgcttggcttggctttgtgtagcttcgctgtttttgctctactggactggagtagtagctaggcgcagtacggtttctgatggcgtgattggctactggtggttaattagGTGGTCAGCGATCGCGGCGCGGCTGCCCGGGCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATCCGCAAGCGCCTGCTCCGCATGGGCATC

Basic information

species Zea mays
transcript GRMZM2G031323_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g37210.1 (Oryza sativa), 3'ss of exon 2
gtaagtagtagcatcctagctattctggcttcgcttggcttggctttgtgtagcttcgctgtttttgctctactggactggagtagtagctaggcgcagtacggtttctgatggcgtgattggctactggtggttaattagGTGGTCAGCGATCGCGGCGCGGCTGCCCGGGCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATCCGCAAGCGCCTGCTCCGCATGGGCATC
    |||  |  |||  |  ||| | |       ||    |  |  |  || |   |      || |   ||| |     ||  |      | ||    | || |||| |   || |||||   |  |  |  |   ||||||||||||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||| 
----gtaagattatca-aattatccggctaataattattgtttcagtacgtggacac------ttgggcgtacggttgctgatgatcgatgatgccggttgcgttttccgt--gcatgatttttttttttttttggcttagGTGGTCAGCGATCGCGGCGCGGCTGCCGGGCCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATCCGCAAGCGCCTCCTCCGCATGGGCATA

upper sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA01G06190.1 (Glycine max), 3'ss of exon 3
gtaagtagtagcatcctagctattctggcttcgcttggcttggctttgtgtagcttcgctgtttttgctctactggactggagtagtagctaggcgcagtacggtttctgatggcgtgattggctactggtggttaat-tagGTGGTCAGCGATCGCGGCGCGGCTGCCCGGGCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATCCGCAAGCGCCTGCTCCGCATGGGCATC
                                      |            |    | |   | |   | ||      |    ||  |||||   | |||     || |  |    || |  | | ||  | |  |    |  ||||||   ||  | || |   |||||    | || ||||| |||||||||||||||||||||||  |  ||   ||  |  |  |  | |||      
------------------------------------cacacacacacacacacacacacatatatatatatatatatatatcttacaagctaaatggagttgccattgttctaatttg-tatgtttctatttgcaagCACAAATGGTCAATCATAACAGCTCACTTGCCCAATAGAACAGACAATGAGATCAAGAACTACTGGAACACCAATGTCAAGAAAAGATTCATAAGAATGA-----

upper sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S389_40V6.1 (Physcomitrella patens), 3'ss of exon 1
gtaagtagtagcatcctagctattctggcttcgcttggcttggctttgtgtagcttcgctgtttttgctctactggactggagtagtagctaggcgcagtacggtttctgatggcgtgattggctactggtggttaattagGTGGTCAGCGATCGCGGCGCGGCTGCCCGGGCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATCCGCAAGCGCCTGCTCCGCATGGGCATC
                                       || | ||||| | | ||   ||| |||  |    ||     | |     |    || ||| |   ||  |  |   |  ||  | |  || || ||    || ||||| || || ||    |  || ||  | || || ||||||||||||||||||||||||||||| ||| |    ||||| ||  | |  ||||| || 
---------------------------------------tttgttttgttttgtttttttgtgtttttttgtgtgtgtgtgcgagtgcgtggagcacagaaaaattgattttt-tggaatgtgttgttgttgattcgc-agATGGTCTGCCATAGCTAGCCATCTTCCTCGCCGCACTGACAACGAGATCAAGAACTACTGGAACACACACTTGAAGAAGCGTCTCATGCAAATGGGAATT

upper sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S106_216V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaagtagtagcatcctagctattctggcttcgcttggcttggctttgtgtagcttcgctgtttttgctctactggactggagtagtagctaggcgcagtacggtttctgatggcgtgattggctactggtggtta-attagGTGGTCAGCGATCGCGGCGCGGCTGCCCGGGCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATCCGCAAGCGCCTGCTCCGCATGGGCATC
                      | |||  ||  |||  | | || ||| |  |  ||  |  |   |   |   |   |||        |        || | ||| || |  || |   | | | ||  || ||  ||||| |||||||| |||||||  |  || |||  ||| || ||||||||||| ||||||||||||||||||||  |    || ||  ||   |  ||||| |||
---------------------gtactgaattttcttcccgtcgcgttgggatgtctcatttctgcagacgtcgcgcgttggttacactccacaaaattgt-cagttcctaacagcatttctcgtttct--tgattgcattagATGGTCAGCCATCGCGGGCCATCTCCCCCAGCGTACAGACAACGAGATAAAGAACTACTGGAACACGCATTTGAAGAAACGTTTGGCACAGATGGGAATC

upper sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S389_41V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaagtagtagcatcctagctattctggcttcgcttggcttggcttt-gtgtagcttcgctgtttttgctctactggactggagtagtagctaggcgcagtacggtttctgatggcgtgattggctactggtg-gttaattagGTGGTCAGCGATCGCGGCGCGGCTGCCCGGGCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATCCGCAAGCGCCTGCTCCGCATGGGCATC
                             |||||  ||      |   ||| | |      |  |         |  ||||    || |  |      || ||  | |||    ||||   ||  | |||    |  |   || |||||  | || || ||||  |||||||| ||||| ||||||||||| || ||||||||||| || ||| |    ||||| || || |   |||| |||
----------------------------gttcgcacggtcccattccagtgcatcgcaagcgcatactgctgctttaactgtgtgagaaagtgactcaaggacactgtct--cagcgtttctgttttctgtcctgccatgcagATGGTCGACCATAGCAGCGCATCTGCCCGGACGGACTGACAACGAGATTAAAAACTACTGGAATACACACGTGAAGAAGCGTCTTCTGCAATTGGGAATC

upper sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S45_150V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaagtagtagcatcctagctattctggcttcgcttggcttggctttgtgtagcttcgctgttttt-gctctactggactggagtagtagctaggcgcagtacggtttctgatggcgtgattggctactggtggttaattagGTGGTCAGCGATCGCGGCGCGGCTGCCCGGGCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATCCGCAAGCGCCTGCTCCGCATGGGCATC
                                  |||       |||   |   || |      || |  ||| |   || || ||  |  |        ||  | ||    |    |  ||   || |  |  |    |||||||||||| || ||    |  || ||| | || || ||||||||||| || |||||||||||||||||| |  | ||||| ||||| |  ||||| || 
----------------------------------ttga---aattttacttctttttgtaacagttaggactagttatcttgaataccatttttttaatatatcgctttc--ttatttatttatttatttatattg---tagGTGGTCAGCCATAGCAAGCCATCTTCCCCGCCGCACTGACAACGAGATAAAAAACTACTGGAACACGCACTTGAGGAAGCGACTGCTGCAAATGGGGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctaggcgcagtacggtttctgatggcgtgattggctactggtggttaattagGTGGTCAGCGATCGCGGCGCGGCTGCCCGGGCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATCCGCAAGCGCCTGCTCCGCATGGGCATC
                   ttctgat  putative branch site (score: 3)
                                               ttaatta  TA-rich tract