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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggatgtgttttgacatacatgtgcattcatattagaagatcttctcattattaaaatttcatattccttacctgttctagacacttatgataatgttcagGTCACAACATCAATATACAATTTGATTTTAGGGAAGCTGTATGTGGACCATTATGGTACAATGCGCATACAGGGCAACCGGGAGTACTCGATAAAATTGA

Basic information

species Physcomitrella patens
transcript PP1S18_231V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S18_231V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA13G02610.1 (Glycine max), 3'ss of exon 8
ggatgtgttttgac--atacatgtgcattcatattagaagatcttctcattattaaaatttcatattccttacctgttctagacacttatgataatgttcagGTCACAACATCAATATACAATTTGATTTTAGGGAAGCTGTATGTGGACCATTATGGTACAATGCGCATACAGGGCAACCGGGAGTACTCGATAAAATTGA
   | | |||| ||   |     ||  | ||| |   |  |     ||  | |  | ||||  |  ||   ||  |||     |  ||||       ||||||| || ||||||||||||||| | || || ||||||||||||   || ||||||||||||||||| |||||||| ||||  || |||||    ||  |||
--gtatattttaactgcttaccatgtgtccatttgccacaacgaattctgtgtccagatttggt--tctaaactggtttggagcttttat-------ttcagGTTACTACATCAATATACAATCTCATATTGGGGAAGCTGTATTGTGATCATTATGGTACAATGCGTATACAGGGAAACCAAGACTACTCTTGTAATCTGA

upper sequence: PP1S18_231V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA14G33410.1 (Glycine max), 3'ss of exon 6
ggatgtgttttgacatacatgtgcattcatattagaagatcttctcattattaaaatttcatattccttacctgttctagacacttatgataatgttc----agGTCACAACATCAATATACAATTTGATTTTAGGGAAGCTGTATGTGGACCATTATGGTACAATGCGCATACAGGGCAACCGGGAGTACTCGATAAAATTGA
    || | || |  |   |   |   ||| |    |   ||   ||| |  ||||||   | ||        |||||| ||   ||||    | |||    |||| |||||||||||||||||| | || || || |||||||||   || ||||||||||||||||| |||||||| || |  || |||||    ||| |||
----gtatatttaactgtttccactaccatgtgtcca---ctatccatgaagaaaattgtgtgttgagatttggttctaaactgatatggagcttttcttccagGTTACAACATCAATATACAATCTCATATTGGGAAAGCTGTATTGTGATCATTATGGTACAATGCGTATACAGGGAAATCAAGACTACTCATGTAAACTGA

upper sequence: PP1S18_231V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA06G11470.1 (Glycine max), 3'ss of exon 7
ggatgtgttttgacatacatgtgcattcatattagaagatcttctcattattaaaatttcatattccttacctgttctagacacttatgataatgttcagGTCACAACATCAATATACAATTTGATTTTAGGGAAGCTGTATGTGGACCATTATGGTACAATGCGCATACAGGGCAACCGGGAGTACTCGATAAAATTGA
                              ||||  |  |  |   | |  || ||| || |  |      ||  | |  | |   |        ||||||| || ||||||||||||||| | || || || ||||| |||   || || |||||||||||||| |||||||| ||||  |||||||||   ||| |||
---------------------------gtaattattatctgcttcaactgctacaatatcctgctttggttctaatttctaaatggacttgttctttcagGTTACTACATCAATATACAATCTCATATTGGGAAAGCTATATTGTGATCACTATGGTACAATGCGTATACAGGGAAACCAAGAGTACTCGTGTAAACTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattattaaaatttcatattccttacctgttctagacacttatgataatgttcagGTCACAACATCAATATACAATTTGATTTTAGGGAAGCTGTATGTGGACCATTATGGTACAATGCGCATACAGGGCAACCGGGAGTACTCGATAAAATTGA
                   tccttac  putative branch site (score: 2)
     ttaaaatttcatatt  TA-rich tract