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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgtttctggatcgtccatctacagtcgtatttgagatttagaggctcaatcctcaactcgtatgagctacatggagacctcgtttcactgaccatcaatgtggctggtgattgtcgacatggcagGGGCAAAGTTGCAGAGGGTATTGATTTTGACCGGCACTATGGTCGCCTTGTGATTATGTATGGTGTACCATTTCAATACACCCTCAGCAG

Basic information

species Physcomitrella patens
transcript PP1S145_26V6.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S145_26V6.3 (Physcomitrella patens), 3'ss of exon 9
lower sequence: LOC_Os05g05260.1 (Oryza sativa), 3'ss of exon 6
gtaagttgtttctggatcgtccatctacagtcgtatttgagatttagaggctcaatcctcaactcgtatgagctacatggagacctcgtttcactgaccatcaatgtggctggtgattgtcgacatggcagGGGCAAAGTTGCAGAGGGTATTGATTTTGACCGGCACTATGGTCGCCTTGTGATTATGTATGGTGTACCATTTCAATACACCCTCAGCAG
                     ||  |    |  |  |  |  ||||   | ||     |  |||| |    |||||||       | |    |     |||  |  |  ||    | | |   ||   |||||||||||| || || |||||||||||||| || ||||||||  | |||||||| |||| |||||| || || || ||||| ||||||||
--------------------tcaagtgttattattataaatgtttaagtggtc-----ttgactcatg---gctacataatatgatggacatatgactcat--agctaactacc-actatgctcaatccagGGGCAAAGTAGCCGAAGGTATTGATTTTGATCGACACTATGGCAGACTTGTGATCATGTTTGGTGTTCCTTTCCAGTACACACTCAGCAG

upper sequence: PP1S145_26V6.3 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GRMZM2G097605_T02 (Zea mays), 3'ss of exon 1
--------------gtaagttgt-ttctggat-cgtccatctacagtc-gtatttga--gatttagaggctcaatcct-caact---cgtatgagctacatggagacctcgtt-tcactg--accatcaatgtggct---ggtgattgtcgac-atggcagGGGCAAAGTTGCAGAGGGTATTGATTTTGACCGGCACTATGGTCGCCTTGTGATTATGTATGGTGTACCATTTCAATACACCCTCAGCAG
               ||  |||  ||||| |  |  || || | | |   |||||||     | | |   ||| |  |   |||     | |||  || ||  | |  | ||   || ||  | |   | | |  ||   | | |   |  || |  |||||||||||||||| || |||||||||||||| |||||||||||  |  | || || |||| |||||| || || || |||||  | ||  |
gttggtccaccttattattttgcgttctgaaagcaaccttccaaaatttatatttgatcatgtcaaataatcagtaatgtgactgactatgtgatatagataaaaatgttgtcgccattgtaagctatagtttcacttttgctaacacttaactaatgcagGGGCAAAGTTGCTGAAGGTATTGATTTTGATCGGCACTATGGCAGATTAGTTATCATGTTTGGTGTTCCTTTCCAGTACACATTGAGTCG

upper sequence: PP1S145_26V6.3 (Physcomitrella patens), 3'ss of exon 9
lower sequence: EFJ08988 (Selaginella moellendorffii), 3'ss of exon 6
gtaagttgtttctggatcgtccatctacagtcgtatttgagatttagaggctcaatcctcaactcgtatgagctacatggagacctcgtttcactg--accatcaatgtggctggtg-attgtcgacatggcagGGGCAAAGTTGCAGAGGGTATTGATTTTGACCGGCACTATGGTCGCCTTGTGATTATGTATGGTGTACCATTTCAATACACCCTCAGCAG
                                                                               |     | | ||  |||  ||| |  |  |||       |||||   |   | ||||| ||||||||||| |||||||| || || || || |||||||||||||| || |||| ||| || || ||||| || || || |||| 
-------------------------------------------------------------------------------gtttgttagcttttctggcaccttttacttggtaaaaacattgtt--ctatgtagGGGGAAAGTTGCAGAAGGTATTGACTTCGATCGACATTATGGTCGCCTTGTCATAATGTTTGGGGTGCCGTTTCAGTATACACTGAGCAA

upper sequence: PP1S145_26V6.3 (Physcomitrella patens), 3'ss of exon 9
lower sequence: EFJ30044 (Selaginella moellendorffii), 3'ss of exon 6
gtaagttgtttctggatcgtccatctacagtcgtatttgagatttagaggctcaatcctcaactcgtatgagctacatggagacctcgtttcactgac--catcaatgtggctggtg-attgtcgacatggcagGGGCAAAGTTGCAGAGGGTATTGATTTTGACCGGCACTATGGTCGCCTTGTGATTATGTATGGTGTACCATTTCAATACACCCTCAGCAG
                                                                               |     | | ||  ||| |  | |  |  ||||      |||||   |   | ||||| ||||||||||| |||||||| || || || || |||||||||||||| || |||| ||| || || ||||| || || || |||| 
-------------------------------------------------------------------------------gtttgttagcttttctggcatcttttacttggcaaaaacattgtt--ctatgtagGGGGAAAGTTGCAGAAGGTATTGACTTCGATCGACATTATGGTCGCCTTGTCATAATGTTTGGGGTGCCGTTTCAGTATACACTGAGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggagacctcgtttcactgaccatcaatgtggctggtgattgtcgacatggcagGGGCAAAGTTGCAGAGGGTATTGATTTTGACCGGCACTATGGTCGCCTTGTGATTATGTATGGTGTACCATTTCAATACACCCTCAGCAG
               cactgac  putative branch site (score: 2)