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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcagatccatgagattaacttaaaccatcatctttgaatatatatatatatatataagataagcattgaccttgatctattacaaactacaggattgaatataaattccaatatgtggtttgaagtatgcaaaatagataattatataatgtggtgatacatatatatgtgcatggtaacagTTATGATTTAAATGTAGACTTGTTGGATGTTCATGTTGACAAAAACACATTCCACCGTTTTGATAAGTTCAACCTTAAGTACAATCCATGCGGCCAAAGC

Basic information

species Physcomitrella patens
transcript PP1S307_76V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S307_76V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: LOC_Os05g28180.2 (Oryza sativa), 3'ss of exon 5
gtaagcagatccatgagattaacttaaaccatcatctttgaatatatatatatatatataagataagcattgaccttgatctattacaaactacaggattgaatataaattccaatatgtggtttgaagtatgcaaaatagataattatataatgtggtgatacatatatatgtgcatggtaacagTTATGATTTAAATGTAGACTTGTTGGATGTTCATGTTGACAAAAACACATTCCACCGTTTTGATAAGTTCAACCTTAAGTACAATCCATGCGGCCAAAGC
                                                                                    |      |    | ||| || | |       | | |  |||  |  |||    |   |  | ||| || | || | ||  ||   |   |   |  |   || ||||| || ||||| || ||  | ||||| ||||  |||||||  ||||| || |||||||| || |||||||||||||||||||| || |||||||| 
-----------------------------------------------------------------------------------gtgtgttttgagagcttggattttatcctatgtttatactttatataatgatgga---accactatttagt-tgattatcaattcttcgttttctttttctagGTATGACTTGAATGTTGATTTACTAGATGTCCATGCGGACAAAAGTACATTTCATCGTTTTGACAAATTCAACCTTAAGTACAATCCGTGTGGCCAAAGT

upper sequence: PP1S307_76V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GRMZM2G416667_T03 (Zea mays), 3'ss of exon 9
gtaagcagatccatgagattaacttaaaccatcatctttgaatatatatatatatatataagataagcattgaccttgatctattacaaactacaggattgaatataaattccaatatgtggtttgaagtatgcaaaatagataattatataatgtggtgatacatatatatgtgcatggtaacagTTATGATTTAAATGTAGACTTGTTGGATGTTCATGTTGACAAAAACACATTCCACCGTTTTGATAAGTTCAACCTTAAGTACAATCCATGCGGCCAAAGC
                                                                              |  | | |||  || |    | | |||||    | |||  || |  |    |    || | | ||  | | |  |  || ||    |||   ||    ||  |  ||| |||||| | ||||| || ||| | ||||| ||||  ||||||| |||||| || |||||||| || ||||| || || ||||||||||| |||||||| 
------------------------------------------------------------------------------acatgt-acattctcccctttcggatatagtaacaaatgagttgccta---ttcctaatacatatgttgacactac-tgttggcttata---attcttattttctcagGTATGATCTGAATGTTGATTTGCTAGATGTCCATGCAGACAAAAGCACATTTCATCGTTTTGACAAATTCAATCTAAAATACAATCCATGTGGCCAAAGT

upper sequence: PP1S307_76V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: AT2G38280.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagcagatccatgagattaacttaaaccatcatctttgaatatatatatatat-atataagataagcattgaccttgatctattacaaactacaggattg------aatataaatt-ccaatat-gtggtttgaagtatgcaaaatagataattatataatgtgg---tgatacatatatatgtgcatggtaacagTTATGATTTAAATGTAGACTTGTTGGATGTTCATGTTGACAAAAACACATTCCACCGTTTTGATAAGTTCAACCTTAAGTACAATCCATGCGGCCAAAGC
||||  | ||     |  |   |||| |    |    || | | ||| |  || | ||    |  |  |  | |  ||   || |||  | |  |    |||      |    | ||| ||  ||| |   |||  |  ||    |  |    |    | ||  |     |  | | | | | ||  ||| | | ||| |||||  | || || ||| | |||||||||||||  |||||||  || || || |||||||||||||||||||| ||||| || || || || ||||| 
gtaattacatttccaactt---cttagaattcccaacttaactctatctgaatctgatggctgcaagactattagattaccctcttaggagcctcctagttgttgcgcaccgcagattgcctgtattgcattttttaccatttttaccatgacaccgaagaaattaacctttttccctttgtttgaacattgca-cagATATGACCTGAACGTCGACCTTTTGGATGTTCATGCAGACAAAAGTACCTTTCATCGTTTTGATAAGTTCAACCTAAAGTATAACCCTTGTGGTCAAAGT

upper sequence: PP1S307_76V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: Vv08s0105g00570.t01 (Vitis vinifera), 3'ss of exon 8
gtaagcagatccatgagattaacttaaaccatcatctttgaatatatatatatatatataagataagcattgaccttgatctattacaaactacaggattgaatataaattccaatatgtggtttgaagtatgcaaaatagataattatataatgtggtgatacatatatatgtgcatggtaacagTTATGATTTAAATGTAGACTTGTTGGATGTTCATGTTGACAAAAACACATTCCACCGTTTTGATAAGTTCAACCTTAAGTACAATCCATGCGGCCAAAGC
                                      | || || | | | | | | ||| |  |   ||||||  ||| | |       |   ||   || | ||| ||   | |  |  || |   | | | |  | || || | |  ||| |      || |  |  | ||  ||  ||||| |||||  | ||||| ||| | || ||||||||||  ||||| | |||||| || ||||||||||||||||| || ||||||||||| ||||| ||||| 
----------------------------------gtaataaaaatttgtttttttttttaatactat--ttgaccaagatgtgtg------tgtggg---gagtgtaattttttacacctt-ttagtcatttaccattttga-aactctg-aatataacctcac-tgaacttttgtttg--aacagGTATGACCTGAATGTTGACCTTTTAGATGTTCATGCAGACAAGAGCACATTTCATCGTTTTGATAAGTTCAATCTCAAGTACAATCCCTGCGGTCAAAGT

upper sequence: PP1S307_76V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EDP03596 (Chlamydomonas reinhardtii), 3'ss of exon 5
gtaagcagatccatgagattaacttaaaccatcatctttgaatatatatatatatatataagataagcattgaccttgatctattacaaactacaggattgaatataaattccaatatgtggtt-tgaagtatgcaaaatagataattatataatgtggtgatacatatatatgtgcatggtaacagTTATGATTTAAATGTAGACTTGTTGGATGTTCATGTTGACAAAAACACATTCCACCGTTTTGATAAGTTCAACCTTAAGTACAATCCATGCGGCCAAAGC
                                                                             || |  |       | ||  |  |       |  ||||    ||||  || | ||||||  |  ||   |     ||| ||   | ||||   || |       |    | || ||  | || || |||  | ||||  | || |  ||||| ||||| |||||||| || || ||||||||||| |||||||| || ||||||||    
-----------------------------------------------------------------------------gagcc-tcgaggggtccaaaaccgct-----accccaacggctggtgatggactatgcatgaaggac--tccacgaatatgcacacacatgc-tacgctttgcatgcagGCTACGACCTGAACGTGGACACGCTGGACATGCACGCGGACAAGAACACCTTCCACCGCTTCGACAAGTTCAACCTCAAGTACAACCCGTGCGGCCAGTC-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcaaaatagataattatataatgtggtgatacatatatatgtgcatggtaacagTTATGATTTAAATGTAGACTTGTTGGATGTTCATGTTGACAAAAACACATTCCACCGTTTTGATAAGTTCAACCTTAAGTACAATCCATGCGGCCAAAGC
     aatagataattatata  TA-rich tract