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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcataaccggtagactcttctgaatgcgtggcttatgacgtttctagcatatcatcaaaacgcccagtaacattttgttccgggacacaatgcaatcagGAGGATGAGAAAGAACAATTAATACAGGAGACAGGATTGGAGCTCAAGCAAGTCAACAACTGGTTTATAAACCAGCGAAAGCGAAACTGGCATAGCAACC

Basic information

species Physcomitrella patens
transcript PP1S77_59V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S77_59V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os02g08544.2 (Oryza sativa), 3'ss of exon 4
tgcataaccggtag-actcttctgaatgcgtggcttatgacgtttctagcatatcatcaaaacgcccagt--aacattttgttccgggacacaatgcaatcagGAGGATGAGAAAGAACAATTAATACAGGAGACAGGATTGGAGCTCAAGCAAGTCAACAACTGGTTTATAAACCAGCGAAAGCGAAACTGGCATAGCAACC
    ||   || |  |   |||    | |||  |||      ||  ||   |||||       | |  |   | || ||  |||    |||||    | |||||| || || || |  |   |  | ||||| || || ||  | || |||||| ||||||| ||||| || ||||| || || |||||||||||||||||||
---gtacgtggcaccaacattccatttccgtaactt----tattattatggtatcaattgtgggtcatgacgagcaattctttct---acaca---tattcagGAAGACGACAAGGCCCGCCTGGTGCAGGAAACGGGGTTACAACTGAAGCAAATCAACAATTGGTTCATTAACCAACGCAAACGAAACTGGCATAGCAACC

upper sequence: PP1S77_59V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G433591_T02 (Zea mays), 3'ss of exon 5
-tgcataaccggtagactcttctgaatgcgtggcttatgacgtttctagcatat-catcaaaacgcccagtaacattttgttccgggacacaatgcaatcagGAGGATGAGAAAGAACAATTAATACAGGAGACAGGATTGGAGCTCAAGCAAGTCAACAACTGGTTTATAAACCAGCGAAAGCGAAACTGGCATAGCAACC
 | | | ||     |  ||  || ||| |     ||| |    | ||| ||  | |  |  |  |   || |||  |||| |          |  |   ||||| || || || |    | |  | ||||| || || ||| |||| |||||| ||||||||||||| || ||||| || ||||| |||||||| |||||||
gtacgtgac--accgcgtcaacttaattccctcgtta-gcttctgctatcaggttcggctcattgatgagcaactctttgctt---------actcgtccagGAAGACGACAAGGCCAGACTGGTGCAGGAAACGGGGTTGCAGCTAAAGCAAATCAACAACTGGTTCATTAACCAACGCAAGCGGAACTGGCACAGCAACC

upper sequence: PP1S77_59V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ24870 (Selaginella moellendorffii), 3'ss of exon 4
------------------------------------------------------tgcataaccggtagactcttctgaatgcgtggcttat-gacgtttctagcatatcatcaaa-acgcccagtaacattttgt-tccgggacacaatgcaatc----agGAGGATGAGAAAGAACAATTAATACAGGAGACAGGATTGGAGCTCAAGCAAGTCAACAACTGGTTTATAAACCAGCGAAAGCGAAACTGGCATAGCAACC
                                                        ||  |  | ||||   || || || |    |  |  ||       |||||   |||    | ||  | |    ||| |  | |      | | ||  ||    |||| ||||| || | ||   |  | |||||||| |||||||||||||||||  ||||||| ||||||||||||||| | |||||||||||||| ||||| |
gtaagttcttcttttctacgcccatacgcttgcttctacaagcgagcctctattgacaagattgataga---ttttggatccacaaccgaaagaaagaagaagcatggaatcgtttatgcttatttttttttcgccttctaatttctacgcgttcttccagGAAGATGACAAGGCACGTCTTGTCCAGGAGACCGGATTGGAGCTCAAGCAGATCAACAATTGGTTTATAAACCAGAGGAAGCGAAACTGGCACAGCAATC

upper sequence: PP1S77_59V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ05363 (Selaginella moellendorffii), 3'ss of exon 4
tgcataaccggtagactcttctgaatgcgtggcttatgacgtttctagcatatcatcaaaacgcccagtaacattttgttccgggacacaatgcaatcagGAGGATGAGAAAGAACAATTAATACAGGAGACAGGATTGGAGCTCAAGCAAGTCAACAACTGGTTTATAAACCAGCGAAAGCGAAACTGGCATAGCAACC
                            |||  ||    | ||   |||||           ||    | |    |    |  ||     |||    |||||||| ||||| |  |   |  | || ||||| ||  |||||||||||||| ||||||||||||| || |||||||| ||||| ||||||||   | |||
----------------------------gtgagttcacgcattctcagcat----------tgctggatcatcgatctcactaggtagagatgtgg-cagGAGGACGAGAAGGCGCGGCTGGTCCAAGAGACCGGGCTGGAGCTCAAGCAAATCAACAACTGGTTCATCAACCAGCGCAAGCGCAACTGGCACCACCACC

upper sequence: PP1S77_59V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ30264 (Selaginella moellendorffii), 3'ss of exon 4
------------------------------------------------------tgcataaccggtagactcttctgaatgcgtggcttat-gacgtttctagcatatcatcaaa-acgcccagtaacattttgt-tccgggacacaatgcaatc----agGAGGATGAGAAAGAACAATTAATACAGGAGACAGGATTGGAGCTCAAGCAAGTCAACAACTGGTTTATAAACCAGCGAAAGCGAAACTGGCATAGCAACC
                                                        ||  |  | ||||   |  || || |    |  |  ||       |||||   |||    | ||  | |     || |  | |      | | ||  ||    |||| ||||| || | ||   |  | |||||||| |||||||||||||||||  ||||||| ||||||||||||||| | |||||||||||||| ||||| |
gtaagttcttcttttctacgcccatacgcttgcttctacaagcgagcctctattgacaagattgataga---tgttggatccacaaccgaaagaaagaagaagcatggaatcgtttatgcttattttttcttcgccttctaatttctacgcgttcttccagGAAGATGACAAGGCACGTCTTGTCCAGGAGACCGGATTGGAGCTCAAGCAGATCAACAATTGGTTTATAAACCAGAGGAAGCGAAACTGGCACAGCAATC

upper sequence: PP1S77_59V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ06200 (Selaginella moellendorffii), 3'ss of exon 4
tgcataaccggtagactcttctgaatgcgtggcttatgacgtttctagcatatcatcaaaacgcccagtaacattttgttccgggacacaatgcaatcagGAGGATGAGAAAGAACAATTAATACAGGAGACAGGATTGGAGCTCAAGCAAGTCAACAACTGGTTTATAAACCAGCGAAAGCGAAACTGGCATAGCAACC
                            |||  ||    | ||   |||||           ||    | |    |    |  ||     |||    |||||||| ||||| |  |   |  | || ||||| ||  |||||||||||||| ||||||||||||| || |||||||| ||||| ||||||||   | |||
----------------------------gtgagttgacgcattctcagcat----------tgctggatcatcgatctcactaggtagagatgtgg-cagGAGGACGAGAAGGCGCGGCTGGTCCAAGAGACCGGGCTGGAGCTCAAGCAAATCAACAACTGGTTCATCAACCAGCGCAAGCGCAACTGGCACCACCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagcatatcatcaaaacgcccagtaacattttgttccgggacacaatgcaatcagGAGGATGAGAAAGAACAATTAATACAGGAGACAGGATTGGAGCTCAAGCAAGTCAACAACTGGTTTATAAACCAGCGAAAGCGAAACTGGCATAGCAACC
                    cagtaac  putative branch site (score: 2)
                       taacatttt  TA-rich tract