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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggacggctggatccatattttgctccgtttgtgagtacgtcgtgttgagcgacgtccttcgtggtttctgctcaaccgggcgttggatgtatcgtgggtttgatgcgtggattggtggcattggcaacgcagGGGTTGAAGACGGCGATCATCGAGGGGGACGTTGTTGGCGGTACTTGTGTCAACCGAGGGTGTGTGCCTTCGAAAGCTCTCTTGGCTGTGAGTGGGCGTA

Basic information

species Physcomitrella patens
transcript PP1S112_186V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S112_186V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 1
gtaggacggctggatccatattttgctccgtttgtgagtacgtcgtgttgagcgacgtccttcgtggtttctgctcaaccgggcgttggatgtatcgtgggtttgatgcgtggattggtggcattggcaacgcagGGGTTGAAGACGGCGATCATCGAGGGGGACGTTGTTGGCGGTACTTGTGTCAACCGAGGGTGTGTGCCTTCGAAAGCTCTCTTGGCTGTGAGTGGGCGTA
       ||    |  ||||||||   |  |   | |  | |     ||| |    |    |   | ||| |  ||         | |||   ||      |||||  || |||   ||||  |       |||||| ||||| ||||| ||  | ||||| ||||| ||||| || || ||||| ||| |||| ||||| ||||| || ||||| |||||||||||||| || |
-------ggacaaaaacatatttttgcctttaactaatgaag--aaattgcgtattgc---tgaagttttatattct--------tcggagaaat------tttgaaacgagga--agtggttt-------gcagGGTTTGAAAACGGCCATTGTTGAGGGAGACGTGGTTGGAGGGACATGTGTGAACAGAGGATGTGTTCCTTCTAAGGCTCTTTTGGCTGTGAGTGGTCGAA

upper sequence: PP1S112_186V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaggacggctggatccatattttgctccgtttgtgagtacgtcgtgttgagcgacgtccttcgtggtttctgctcaaccgggcgttg--gatgtatcgtgggtttgatgcgtggattggtggcattggcaacgc-agGGGTTGAAGACGGCGATCATCGAGGGGGACGTTGTTGGCGGTACTTGTGTCAACCGAGGGTGTGTGCCTTCGAAAGCTCTCTTGGCTGTGAGTGGGCGTA
                                                 |   || ||   |  |     ||| |     |   ||    ||| |    ||  | | |||     |||||||   |||     |  ||||  | || || || || || || || || |||||||| || |||||||| ||| |||| ||||||||||| ||||||||  | ||||| ||||| || |
-------------------------------------------------gtttgaagtttcttatataacctgatttgatgaaagtaaaagatttgctctgcttattatggaaacattggtgattttgtttgtgttagGGACTTAAAACAGCCATTATTGAAGGAGATGTTGTTGGAGGGACTTGTGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAA

upper sequence: PP1S112_186V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaggacggctggatccatattttgctccgtttgtgagtacgtcgtgttgagcgacgtcct--tcgtggtttctgctcaaccgggcgttggatgtatcgtgggtttgatgcgtggattggtggcattggcaacgcagGGGTTGAAGACGGCGATCATCGAGGGGGACGTTGTTGGCGGTACTTGTGTCAACCGAGGGTGTGTGCCTTCGAAAGCTCTCTTGGCTGTGAGTGGGCGTA
                                  | | || | |   ||  |   ||| ||     |   |     ||     ||  ||     | || | |  |   ||  ||  ||| |  | |||       ||||  | || || || ||||| || || || |||||||| |||||||| || ||| |||| ||||||||||| ||||||||  | ||||| |||||  | |
--------------------------------cttcaatatgccaattttggaatcgtactagctattactgtatttctttacggtattcatgatctcatcgagtgattgt-tgttttgataacgttg----tatagGGACTCAAAACTGCTATCATTGAAGGAGATGTTGTTGGAGGTACTTGCGTTAACAGAGGCTGTGTGCCTTCCAAAGCTCTACTTGCTGTTAGTGGTAGGA

upper sequence: PP1S112_186V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 1
gtaggacggctggatccatattttgctccgtttgtgagtacgtcgtgttgagcgacgtccttcgtggtttctgctcaaccgggcgttggatgtatcgtgggtttgatgcgtggattggtggcattggcaacgcagGGGTTGAAGACGGCGATCATCGAGGGGGACGTTGTTGGCGGTACTTGTGTCAACCGAGGGTGTGTGCCTTCGAAAGCTCTCTTGGCTGTGAGTGGGCGTA
                    |||||||   |  |  | |||      |||||  |     || |  | |       ||  |  | |      | |  |   |||         |    ||         | |||||| | |||||| |||||||| || || || || ||||| || || ||||| ||||| || ||||| ||||| ||||||||| | |||||||||||||| |
--------------------ttttgctttctgag-aaatacaagtacttgagaaa-----tttgaagctatcaagaaat-gaacatcatgactctattcaatttcgaaaaaaaaaaaatgt--------atgcagGGCTGGAAGACTGCGATCATTGAAGGTGATGTGGTTGGAGGAACATGTGTGAACCGGGGCTGTGTTCCTTCCAAAGCTCTCCTTGCTGTGAGTGGGCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggcgttggatgtatcgtgggtttgatgcgtggattggtggcattggcaacgcagGGGTTGAAGACGGCGATCATCGAGGGGGACGTTGTTGGCGGTACTTGTGTCAACCGAGGGTGTGTGCCTTCGAAAGCTCTCTTGGCTGTGAGTGGGCGTA
                    gtttgat  putative branch site (score: 5)