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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtctttctctcatcaattcattcctcatgcacagtagctttactatgttcttgcaatcgattacctcgtctgtctccccccagtttttaactaacttgaagcctttctacacacagGGTAATAGCCTCATGAGGCTTCTCTATGTTGGAGCTTTTGCAGTGTCAGGGTACTCTTCAACAGAGGGCCGTACTTGTAAACCTTTTAATCCCCTGCTTG

Basic information

species Physcomitrella patens
transcript PP1S40_145V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S40_145V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA04G43220.1 (Glycine max), 3'ss of exon 4
---------------------------------------------------------------gtgagtctttctctcatcaattcattcctcatgcacagtagctttactatgttcttgcaatcgattacctc-----------gtctgtctccccccagtttttaactaacttgaagcctttctacacacagGGTAATAGCCTCATGAGGCTTCTCTATGTTGGAGCTTTTGCAGTGTCAGGGTACTCTTCAACAGAGGGCCGTACTTGTAAACCTTTTAATCCCCTGCTTG
                                                                |     ||| ||   | || | |       || |   |  ||||   || |||||||  || | ||  ||           |  ||  |    ||  ||||||||||| | ||          ||  ||||||||||||||||||||| ||||||||||||  |||||||| || || || ||  ||||||| || ||  |   ||| ||||| ||||||||  | ||||
gtaagtctggatttgcctgacaggtctctatttctgcaatattaagcaaatctgagggattaaatagaattttttcatttgaaataagaaaatctgtatgttgactttg--attttcttgctgtcaactatttcaatgcagtattgggtgcattgttcccatttttaactaattggagatgc-----catgcagGGTAATAGCCTCATGAGGATTCTCTATGTTGCGGCTTTTGCTGTATCTGGCTATGCTTCAACTGAAGGAAGAGTTTGCAAACCATTTAATCCGTTACTTG

upper sequence: PP1S40_145V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA06G11470.1 (Glycine max), 3'ss of exon 5
---------------------------------------------------gtgagtctttctctc--atcaattcattcctcatgcaca-----gtagctttactatg---ttcttgcaatcgattacctc-----------gtctgtctccccccagtttttaactaacttgaagcctttctacacacagGGTAATAGCCTCATGAGGCTTCTCTATGTTGGAGCTTTTGCAGTGTCAGGGTACTCTTCAACAGAGGGCCGTACTTGTAAACCTTTTAATCCCCTGCTTG
                                                    |||||  ||   |   ||   ||||||    ||    |     ||| ||| ||| ||   |||||||  |    ||  ||           |  ||  | |  |   ||||||||||| | ||    |     ||  ||||||||||||||||||||| ||||||| ||||  ||||||||  | || || ||  ||||||| || ||  |   ||| ||||| ||||||||  | ||||
gtaagtctggatttggctgacaggtctctatttctgcaatattaagcaaatctgagtgcttaaatagaattgtttcatttgaaataagaaaatctgtatcttgactttgattttcttgctgttagctatttcaatgcagtattgggtgcattcttctcatttttaactaattggagatgt-----catgcagGGTAATAGCCTCATGAGGATTCTCTACGTTGCGGCTTTTGCTATATCTGGCTATGCTTCAACTGAAGGAAGAGTTTGCAAACCATTTAATCCATTACTTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacctcgtctgtctccccccagtttttaactaacttgaagcctttctacacacagGGTAATAGCCTCATGAGGCTTCTCTATGTTGGAGCTTTTGCAGTGTCAGGGTACTCTTCAACAGAGGGCCGTACTTGTAAACCTTTTAATCCCCTGCTTG
                           aactaac  putative branch site (score: 1)
                                        cctttctac  putative PPT
                      tttttaactaactt  TA-rich tract