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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtgattcgccaattagcagaagtacatacaggcccagaatcaaagtgtaattaacaaaaactcttgttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA

Basic information

species Arabidopsis thaliana
transcript AT3G05030.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 5
gtaatgtgattcgccaattagcagaagtacatacaggcccagaatcaaagtgtaattaacaaaaactcttgttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA
|| |  |||        ||  || |  |  | | || ||  || |||| |||  | |   ||  |   |    ||       | |||||| |||||||| ||||||||||| ||  | |||||||| ||||| || || || |||||||| ||||| |||||  ||||||| ||||| ||  | ||||
gttagttgaacaaatt-ttgccatacctcgagagagacctggattcaacgtgctaatg-taatgatcttaacccc------aaaacagGTCCTCAATCAGGATGAGACACCCTTTTTGTACAGTCTGGTATTCGGTGAAGGTGTTGTGAACGATGCTACATCAATTGTGCTTTTCAACGCACTACAGA

upper sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 3'ss of exon 6
gtaatgtgattcgccaattagcagaagtacatacaggccc---agaatcaaagtgtaattaacaaaaactcttgttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA
       | ||  ||| |||           |  | | |    | ||| |||  | |    |  |||  |    ||   ||  |  | ||||| || || ||||| || |||||  | || || ||||| || ||||| || || ||||| |||||||| ||||||||||||||||| ||||| ||| |  
-------gtttttccatttaatgacctgttgttaatgtcttgtaaaatgaaacagcacaccattaaatatgcaattttgttact--tgcagGTGCTTAACCAAGACGAAACACCCCTACTCTATAGTCTGGTTTTTGGTGAAGGGGTTGTCAATGATGCTACATCTGTTGTGCTCTTTAATGCAATTGAAG

upper sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 6
gtaatgtgattcgccaattagcag----aagtacatacaggcccagaatcaaagtgtaattaacaaaaactcttgttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA
||  |||  ||   ||||| ||       |    ||| |     |||    |||   | ||||    || | |  || |||        ||||| || || || ||||| |||||  | || || ||||| || ||||| || || ||||| |||||||||||||||||||||||||||||||| ||| | |
gtt-tgttgttgaacaatttgccatttttatcttataaaaattgagataggaagccaatttaattggaaat-tcattactt-------gcagGTGCTTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAA

upper sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
gtaatgtgattcgccaattagcagaagtac---atacaggcccagaatcaaagtgtaattaacaaaaactcttgttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA-
||  |||  ||   ||||  ||     ||    ||| |     |||    |||   | ||||    || | |  || |||        |||||  | || || ||||| |||||  | || || ||||| || ||||| || || ||||| |||||||||||||||||||||||||||||||| ||| | | 
gtt-tgttgttgaacaatctgccattttatcttataaaaattgagataggaagccaatttaattggaaat-tcattactt-------gcagGTGTT-AACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA

upper sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G027851_T03 (Zea mays), 3'ss of exon 3
---------------------------------------------------gtaatgtgattcgccaattagcagaagtacatacaggcccagaatcaaagtgtaattaacaaaaactcttgttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA
                                                     | | |   | |||  ||    | |    |    | ||| |  |   |   || || ||    | ||    |  |   | || |||||| ||| |||| |||||||| || || || |||||||| || || || ||||| || ||||| |||||||| ||||||||||||||||| ||  | ||||
gttggttggttggttggttgctggaacaatctcatggacatttcatttgaaacagtatatcttgcctcttgagggga----acctggtccctgcttagtaaattatttgacctgtaatcaccattttactg-gaaacagGTCCTCCATCAGGATGAGACGCCCTTTCTGTACAGTCTCGTGTTCGGTGAGGGAGTCGTGAACGATGCCACGTCTGTTGTGCTCTTCAACGCACTCCAGA

upper sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G704237_T01 (Zea mays), 3'ss of exon 3
----gtaatgtgattcgccaattagcagaagtacatacaggcccagaatcaaagtgtaattaacaaaaactcttgttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA-
    ||  | |||     |    |     |    ||| |     |||    |||   | ||||    || | |  || |||        |||||  | || || ||||| |||||  | || || ||||| || ||||| || || ||||| |||||||||||||||||||||||||| ||||| ||| | | 
gtttgttgt-tgaagaatctgccatttttatcttataaaaattgagataggaagccaatttaattggaaat-tcattactt-------gcagGTGTT-AACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA

upper sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S113_117V6.1 (Physcomitrella patens), 3'ss of exon 4
-------gtaatgtgattcgccaattagcagaagtacatacaggcc-cagaatcaaagtgtaattaacaaaaactcttgttcc----tttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA
       |||     ||| |    ||    ||| |   |  |  |  |   |   |  | |  ||  |||    ||   ||       |||    | ||||| |||||||| |||||||| ||| ||||||||||| | || |||||||| || || || |||||||| || ||||| || || ||    ||| ||||  
attcatggtacctgaattggatggttcagggaaatgattggatacttctttaatgatttttttttgtcaattgttcactttgtggtgcttgtctttgcagGTGCTCAATCAGGATGAGACCCCTCTGCTTTACAGTTTGGTGTTTGGAGAAGGAGTAGTCAATGATGCTACTTCTGTGGTTCTATTTCGGGCTGTTCAAT

upper sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 6
------------------------------------------------------------------------------------------------------gtaatgtgattcgccaattagcagaagtacatacaggcccagaatcaaa-gtgtaattaacaaaaactcttg----ttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA
                                                                                                      |     |||||    |   |       | | |     |    ||  ||  | ||  |   |        |||     |  |||  | || |||||||| ||||| |||||  ||||| | || ||||||||||| |||||||| || ||||| |||||||| || ||||| ||  | |||   ||| | ||||
gtgggctgcttttttcgtcactgtcattgaagcactgctgtcaagctcatgtagaaagtgtagagaagatttcaagctttcgtagattggcagagtgtctttgctccatgattttatagagaagctgcattcttctgttcttgaaagtaattgggttttcctctggcgtggttgacgacttgttttttaatgcagGTTCTTAATCAGGATGATTCACCTCTACTATACAGTCTTGTGTTTGGAGAAGGAGTTGTCAATGATGCTACCTCTGTAGTCTTATTCCGGGCTGTACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caggcccagaatcaaagtgtaattaacaaaaactcttgttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA
                    aattaac  putative branch site (score: 2)
                                ctcttgttcctttg  putative PPT
                 tgtaattaacaaaaa  TA-rich tract