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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgtaaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA

Basic information

species Physcomitrella patens
transcript PP1S46_53V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os05g36260.1 (Oryza sativa), 3'ss of exon 4
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgtt--ctcatattgttcgtacctaatcatccactatatgtaaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
|| ||  |  || |  || | |   |   |  ||  ||||||   ||     ||  |   |  ||  | |  ||      |   || | |   ||       |     ||   ||       |     ||||||||||||||||||||||||| |||||||| || || ||||| |||||  | || |||||  |  |||  ||| || |||| ||||| |||   ||||
gtaagtaa--atcaatccattcatctctgct-aagtcaaactttattagggagaaaaaaataacttttgtcatttaagtatcggcaacaagcttacactgcacctgcatttttttccgtttcatgaacagGGAGAGAAGGATGACAAGATCATAGCTGTCTGCGCCGATGATCCTGAGTACCGCCATTTCAATAATCTCAGCGAGCTTTCTCCTCATCGCCTTCAGGAAA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G026470_T02 (Zea mays), 3'ss of exon 3
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgtaaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                                     |  |   |    |  || ||      |  | |   | || |||    ||   ||  |   || | ||        |     |||  || ||||||||||||| |||||||||||||| ||||| || ||||| || |||||  | |||| ||| |||||||  ||| |  | || || || ||    || |
-----------------------------------gtaggccgcccgagacggaccaataatccccactccccatatctaga-gtcttttacttaccaagcaaa----gcgct-----ggaattgcagGGAGAGAAGGACGACAAGATCATCGCCGTCTGCGCCGACGACCCCGAGTACCGCCACTACAACGACATCAGCGAGCTCTCCCCTCACCGCCTCCAGGAGA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G061928_T04 (Zea mays), 3'ss of exon 6
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgtaaatctaatgttaaatttgtaaggacctgt-agGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                              | |   ||  ||||    ||||     |      | |       |  ||   | |  ||| | | | || |||  | ||  | |||  ||   ||| |||| || |||||||||||||| || || ||||||||||| ||||| || ||| | |||| ||| ||||||| |||| |  |||| ||||| ||    || |
------------------------------gtatttcacgctagacactatttgaggtagagggaaaaga---atgactctgctttgactctgtttcaaactatggcta--tctgttgggcgttgtcagGGTGAAAAGGATGACAAGATAATAGCAGTCTGTGCTGATGATCCTGAATATCGTCACTACAACGACATCAGTGAGCTGTCTCCTCATCGCCTGCAAGAGA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA13G19500.2 (Glycine max), 3'ss of exon 6
-----------------------------gtgagggactat---tatgccgtactctttgacggaaaccaaactagcttgtattgat-catgttctcatat-tgttcgtacctaatcatccactatat-gtaaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                             |  || | || |   | |  |   |||| |  |     |          | |||  ||  || |    |||| | |   ||  ||    | |  |  ||  |  |||||   ||||  |||| |  |  |  |||| ||||| ||||||||||| || |||||||||||||| ||||| |||||||| || | ||| || ||||| ||| |||||||||| ||  | || ||||
gtatattagacattccctttttccacaaagcaagagcctctctctctctctctctctctctctctctctctctctatatatatatatatatatatatatatatatatatatttagcagttcttttgattattgatctaccattaa--ttgtgatcaaattcagGGTGAGAAAGATGACAAGATAATTGCTGTCTGTGCTGATGATCCTGAGTATAGGCATTACAATGATATCAAGGAGCTTCCTCCACACCGTTTAGCTGAAA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA19G35710.2 (Glycine max), 3'ss of exon 8
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgtaaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                              | |||  ||||   ||  | |    || |    ||     | |     | || ||  | ||  || | | | | |     | ||||   ||  |  |||| ||||| ||||| || || || |||||||||||||| ||||| ||||||||||| | ||| || ||||| ||| |||||||||||||  | || ||||
------------------------------gtaaattaaaccctctcatttcccgcaagg---caagaactcctcttttgattattgaatac-tgaataaccact-----aattgtgctgatgtaaagGGGGAGAAAGATGATAAAATTATTGCTGTCTGTGCTGATGATCCTGAGTATAGACATTACAATGATATCAAAGAGCTTCCTCCACATCGTTTAGCTGAAA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA03G33000.6 (Glycine max), 3'ss of exon 8
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgtaaatctaatgttaaatt--tgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                              | |||  ||||   |        | ||| ||| || |  |   | ||    || |    | | || | ||  |||    | ||  ||    ||  |  |||| ||||| ||||| ||||| || |||||||||||||| ||||| |||||| |||| | ||| || ||||| ||| |||||||||||||  | || ||||
------------------------------gtaaattaaacactccc------accat-ttcccacacggcaagaactcc-tcttttgatgt-tgaatattgaataaccacttattgcgctgatataaagGGGGAGAAAGATGATAAGATAATTGCTGTCTGTGCTGATGATCCCGAGTATCGACATTACAATGATATCAAGGAGCTTCCTCCACATCGTTTAGCTGAAA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA10G05130.1 (Glycine max), 3'ss of exon 6
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgtaaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
      |  | |||     | |  |||  |  ||| |||   ||| | | |   |  |  ||||     |||| |   | || ||             ||| |   ||||  |||| | ||  |  |||| ||||| ||||||||||| || |||||||||||||| ||||| |||||||| || | ||| || ||||| ||  ||||||| || ||  | || ||||
------gtatgttagatattccctttttccacaaagcaag--agcctctctctctttttctctctagcagttctt--ttgattatt-----------gatcaaccattaa--ttgtgatgaaattcagGGTGAGAAAGATGACAAGATAATTGCTGTCTGTGCTGATGATCCTGAGTATAGGCATTACAATGATATCAAGGACCTTCCTCCTCACCGTTTAGCTGAAA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgt--aaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                                             ||  ||     | || ||  |  | || |||| ||   |   |  | |  |  |||    | | |   | ||   | |    ||||| ||||| || ||||||||||| |||||||| ||||||||||| |||||| | || | ||| ||||||| |||| |||| || |||||  | || || |
--------------------------------------------gttagatattcaacgtacttgtcatattagtacttataaaagtaacagagattgaaactagaagctctttctgcttgaa----tagGGTGAGAAAGACGACAAGATCATTGCTGTCTGCGCTGACGATCCAGAGTATCGCCATTACAACGACATCAGTGAGCTTCCGCCTCATCGTATGGCTGAGA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 5
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgt-aaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                              |  |    |  |  ||       ||||||    ||| | |||| | |  | | |        || | ||||  | |  |  |||  ||         |||||||||| || || |||||||| ||||| || ||||||||||| || ||| |||||| ||  |||||||| ||| |||| || ||| |||| || || |
------------------------------gtgatgtcatttctctcaagcaaatcatgcaaccat-tagttctt-cacagtgagttgaggcatatgaaattcagttctttattcatac-------cagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: Vv08s0040g02470.t01 (Vitis vinifera), 3'ss of exon 6
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgtaaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                                           |     |  ||| |     | ||||| | |   || ||| |    ||| |  |  |  |||| || |  ||| |   ||    |||||||||| ||||||||||| || || || |||||||| ||||| |||||  |||||| ||  || ||||||||| | ||||| || ||  | || || |
-------------------------------------------gtagaaaaagatgacaagat-atatt-tcctctcccaattactt-ctaaaccttgaattaatcttgaccttg-attaac--acagGGAGAGAAAGATGACAAGATAATTGCAGTTTGTGCTGATGATCCTGAGTACCGACACTACACTGATATCAATGAGCTCCCTCCGCACCGTTTGGCTGAGA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: EFJ27219 (Selaginella moellendorffii), 3'ss of exon 5
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgtaaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                                                                 ||    || |  ||     |   ||  ||| | ||  ||  |||| || ||      ||  |||| |||||||| || ||||||||||| || || ||||||||||| ||||  | ||||| | |||||||||| ||  | || || ||  | || || || |
----------------------------------------------------------------gtaacaatcat--cttgctcttgtctgaatgcatatggaagattaa-ttggtggaccgctccagGGCGAGAAGGACGATAAGATCATCGCCGTGTGCGCTGACGATCCCGAGTTCACACACTACCAAGACATCAAGGATCTCCCACCCCACAGGCTGGCAGAGA

upper sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: EFJ33440 (Selaginella moellendorffii), 3'ss of exon 5
gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgtaaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                                                                 ||    || |  ||     |   ||  ||| | ||  ||  |||| || ||      ||  |||| |||||||| || ||||||||||| || || ||||||||||| ||||  | ||||| | |||||||||| ||  | || || ||  | || || || |
----------------------------------------------------------------gtaacaatcat--cttgctcttgtctgaatgcatatggaagattaa-ttggtggactgctccagGGCGAGAAGGACGATAAGATCATCGCCGTGTGCGCTGACGATCCCGAGTTCACACACTACCAAGACATCAAGGATCTCCCACCCCACAGGCTGGCAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacctaatcatccactatatgtaaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
                         atctaat  putative branch site (score: 3)
                tatatgtaaatctaat  TA-rich tract