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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctatgcatcgtttctcataatcttggctagatgctatctatttcttggagtccgtgagcactactaacactttcgtttttggctcttgctccacacagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA

Basic information

species Selaginella moellendorffii
transcript EFJ32111
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ32111 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: LOC_Os09g32260.2 (Oryza sativa), 3'ss of exon 2
---ttctatgcatcgtttctcataatcttggctagatgctatctatttcttggagtccgtgagcactac-taacactttcgtttttggctcttgctccacacagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA
   ||||     |         |  ||     |     |  |       |   | ||  |  |  |||  ||  | |||  | |        |||||||    || ||||| || ||||| |||||||||||||||||||| |  ||  |||| |||||||| || || ||  |||||||||||||||| ||  | || || ||
aggttctgaatgttcaaatatgtggtcacattttttcacacttacacattcacaatctatatgttctatgtattaattttctctaataaatgtgctcca----gAGAAGGCAAAAATGGGAGAGAAGGAATGGTACTTCTTTAGCCTAAGGGATCGAAAGTACCCAACTGGCGTGCGCACAAACCGAGCAACTAATGCTGGTTA

upper sequence: EFJ32111 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: LOC_Os11g03370.1 (Oryza sativa), 3'ss of exon 1
------------------------------------------ttctatgcatcgttt----ctcataatcttgg----ctagatgc-----tatctatttcttgg----agtccgtgagcactactaacactttcgtttttggctc---ttgctccacac---agACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA
                                          |||| |  |  || |       |||    | |     |||||||     |   |   |||||     | |  ||  |  |   ||  | | |  || |||   |   ||  |    |    || |||||| |||||||| ||||| ||||||||||||||||  |    ||||   || || || ||||| ||||| || |||||||||||| |||  |||||
gtaagcctcaagtctcatatgcttacatccttaattctcttcttctctctagagtctagactagatagctgtagagatgtagatgcacaattgcttggctcttgatgttaatttgtttgttcatgtatgaatctgattattgatacaaattaatttgaattgaagGCAAGGCGAAGATGGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACATGAAATACCCGACGGGGATGCGAACCAACCGAGCCACCAAGGAGGGATA

upper sequence: EFJ32111 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: LOC_Os03g42630.1 (Oryza sativa), 3'ss of exon 1
--ttctatgcat-cgtttctcataatcttggctagatgctatctatttcttggagtccgtgagcactactaacactttcgtttttggctcttgctccacacagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA
   ||  ||||| | |     | ||   ||   |  | | |   | |   | || ||  |      |||  |      |  | |||     ||    |  ||| |||||| |  ||||| |||||||| |||||||||||||   |||| ||||| ||||| || ||||| || ||||| ||||| ||||| ||  |||| ||
atatcactgcatgcatacactacaaa--tgcacacgtacaaatgaatgaattga-tcaatcgttcttacacatgaacgcaatgttgatggatgtgatatgcagGCAAGGCAAGCATGGGGGAGAAGGAGTGGTACTTCTTCAGCATGCGCGACCGCAAGTACCCGACGGGGATCCGCACCAACCGCGCCACGGACTCCGGCTA

upper sequence: EFJ32111 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G031001_T01 (Zea mays), 3'ss of exon 1
--------------------------------------------------------------------ttctatgcatcgtttctcataatcttggctagatgctatctatttcttggagtccgtg--agcactactaacactttcgtttttggctcttgctccacacagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA
                                                                    || | ||  |   | ||  || |  | |       || ||| |    |||    | ||   ||   | |   |||       |||  | ||| |     ||| || |||||||||||| |||||||| ||||||||||||   |    ||| || ||||| || ||||| | ||| || ||||| ||||| ||| |||| ||
gttagcactgcgcgctactgcttgatacgtcctcacctcaaagagccaaatagacctgcacctcttttttttttgactttgtgcttgtactagtagtacttctctttctctcggctgggaatcatggcggcctaaatttaactgggaagcttgcgttttgatttctccagGCAGGGCCAAGATGGGGGAGAAGGAGTGGTACTTCTTCTGCCACAAGGATCGCAAGTACCCGACGGGCACGCGGACCAACCGCGCCACGGAGACCGGCTA

upper sequence: EFJ32111 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G159500_T01 (Zea mays), 3'ss of exon 1
------------------------------------------ttctatgcatcgtttctcataat-cttggctagatgctatctatttcttggagtccgtgagc--actactaacactttcgtttttggctcttgctccacacagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA
                                            ||   | |  |||| | |  | |||       |  ||  | |    ||||  || ||  |  || |  || |     |   || ||  | | |     ||| || |||||||||||| |||||||| ||||||||||||   |    ||| || ||||| || ||||| | ||| || ||||| ||||| ||| |||| ||
gttagtacttgctgctactgcatcgacgcctcatagctctaaacctgcaccttttttccccttgtgcttctactagtagtacttctcggctggaaaccatgccctaaccaaaaaaaggacggaactttgcgttggatttctccagGCAGGGCCAAGATGGGGGAGAAGGAGTGGTACTTCTTCTGCCACAAGGATCGCAAGTACCCGACGGGCACGCGGACCAACCGCGCCACGGAGACCGGCTA

upper sequence: EFJ32111 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA12G26190.1 (Glycine max), 3'ss of exon 1
----------------------------------------------------------ttctatgcat-cgtttctcataatcttggctagatgctatctatttcttggagtccgtgagcactactaacactttc--gtttttggctct-----tgctccaca---cagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA
                                                           | |||  ||  ||     ||||   |  ||   |   ||     || ||| ||  | ||      | || |||||    ||| |  || |      | | ||     |||| || || ||||||||||||||||||||||||||||  |  || || ||||||||||| || || ||  | ||||||||  ||||||| || || || ||
gtaactaattacaacaacaaaaccaaaaccctcatcgactaattttaagactaaaacaatgtatatatatgtagaaaataactctcacttagtaaaataatcatcatggggtt-gagaattaggccaaaactttgtaatttctaactttgttatcgtttcatgtggcagAGAAAGCAAAGATGGGTGAGAAGGAATGGTACTTCTATAGCCTTCGTGACCGAAAGTACCCAACTGGGTTACGCACAAATAGAGCCACTGAAGCTGGTTA

upper sequence: EFJ32111 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA06G35660.1 (Glycine max), 3'ss of exon 1
ttctatgcatcgtttctcataatcttggctagatgctatctatttcttggagtccgtgagcactactaacactttcgtttttggctcttgctccaca-----cagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA
    ||   |   |  || |||  |   |    || |    | || |   ||  | |    | | |||||   || ||| || ||| ||| | || |     |||| || || ||||||||||||||||||||||||||||  |  || || ||||||||||| || || ||| | ||||| ||  | |||||||| || || ||
--taataactttctcttcgtaagataatcattgtggtggagaattatgccagaacattgttattgctaac---tttgttatttgctattgtttcatatgtggcagAGAAAGCAAAGATGGGTGAGAAGGAATGGTACTTCTATAGCCTTCGTGACCGAAAGTACCCAACTGGATTACGCACCAATAGGGCCACCGAAGCTGGTTA

upper sequence: EFJ32111 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S327_64V6.1 (Physcomitrella patens), 3'ss of exon 1
----------------------------ttctatg-catcgtttctcataatcttggctagatg-ctatctatttcttggagtccgtgagcactactaacactttcgtttttggctcttgctccacacagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA
                            |  | ||   | || |    |  ||     | | ||   || |       |  |  |   | || |   |  | |||| |   |||    || ||    |||| || || ||| | || |||||||| |||||||||||||  |||||||| || |||||||| ||||||||||| |||||  ||||||||||    || ||
gtgacacaaactcccaatccttccagtatcatctggtgtagtgtgctgtcctccgaatttggtgatcatgtgaactgagatggaccgaatcattgaaattagtttcctcggtgggaaatgatct-tgcagAGAAAGCGAAGTTAGGGGAGAAGGAGTGGTACTTCTTCAGCCTGCGGGATCGCAAGTATCCGACGGGAATGCGAACAAATAGAGCCACCGAAAAGGGTTA

upper sequence: EFJ32111 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S279_85V6.1 (Physcomitrella patens), 3'ss of exon 1
--------------------------------------------ttctatgcatcgt----ttctcataatcttgg-ctagatgctatctatttcttggagtccgtgagcactactaacactttcgtttttggctc----ttgctccac------------acagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA
                                              |||   || ||    |||   || |      |  ||| | |  | |    |    | ||   |  ||||  |    ||  ||| |||        ||||||               |||| ||||||||| | || ||||||||||||||||||||||  ||||| |||||||| || || || ||   ||| || ||| ||||||| ||    |||||
gtatttttttcttttcgcattatccttcagaacatttggtgtagacctaacaattgtgttattcgtgtagtaggaaacctgatacgaaatttagtgtaagattcgcatgatctacagaatgctttatttgtgggataaagctgctccgtctcgatgattttgcagATAAGGCCAAGGTTGGAGAGAAGGAATGGTACTTCTTCAGTCTGCGTGACCGAAAATACCCAACCGGCCAGCGAACTAACAGAGCCACTGATAAGGGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttggagtccgtgagcactactaacactttcgtttttggctcttgctccacacagACAAGGCCAAGATGGGTGAGAAGGAATGGTACTTCTTCACGCTGCGGGACCGAAAGTATCCTACGGGAATGCGCACAAACCGAGCCACCGAGGCCGGATA
                  tactaac  putative branch site (score: 0)
                                       ctcttgctcc  putative PPT
                                ttttt  TA-rich tract