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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttgggttctctctggcttatggatcttatgtatttgatattattctgatgcccaagttgttccctatattgttcagGTTGGTTACCTATGGTATGAATACATATACAAGCTTGACAAGGTTACATACAACAAATATCATCCCTACACATCGTGGATTCCAATAAC

Basic information

species Arabidopsis thaliana
transcript AT2G34410.3
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G34410.3 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os05g50510.1 (Oryza sativa), 3'ss of exon 10
---------------------------------------------------------------------------gtgagtttgggttctctctggcttatggatct-tatgtatttgatattattctgatgcccaagttgttccctatattgttcagGTTGGTTACCTATGGTATGAATACATATACAAGCTTGACAAGGTTACATACAACAAATATCATCCCTACACATCGTGGATTCCAATAAC
                                                                            |   ||||  ||   | |     |||   || |||  |||| | ||   | |  |  | | |   |    |      || ||| ||||||||||||||||||||| || |||| ||| |||||  ||||||||||||| || ||||||||||| || |||||||| || ||
gtaagttgcatccatcttttaccaatgcacagactttctatattgtcaagatgacatacttgtttgctttaccaactagatttgcttttgttttaaaccatgatgctgtattgatttcaaat-gctgtactaactaggacttctgttcctcattttagGCTGGTTACCTATGGTATGAATATATCTACAGGCTAGACAAAATTACATACAACAAGTACCATCCCTACACGTCATGGATTCCTATCAC

upper sequence: AT2G34410.3 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G458538_T01 (Zea mays), 3'ss of exon 5
-----------------------------------gtgagtttgggttctctctggcttatggatcttatg----tat-ttgatattattctgatgcccaagttgttccctatattgttcagGTTGGTTACCTATGGTATGAATACATATACAAGCTTGACAAGGTTACATACAACAAATATCATCCCTACACATCGTGGATTCCAATAAC
                                   |  | | | || | ||| |   | | | |  | |      | | ||| || || | |  || | | ||  |    |   |  |  ||||||| |  || ||||||||||| ||||||||||| ||||| |||||||||||||| || |||||||||||||| ||||| || |||||
gtaagttcccacaatctcttacctttgttgttgtggaaactgttggatttctttaaatcaagtacttgacaccactgtgttgttaatactgtactgactaggtgttgtgtttcttcttctagGTTGGCTTTCTGTGGTATGAATATATATACAAGCTAGACAAAGTTACATACAACAAGTACCATCCCTACACATCATGGATCCCTATAAC

upper sequence: AT2G34410.3 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G076394_T01 (Zea mays), 3'ss of exon 10
gtgagtttg--ggttctctctggct--tatggat---cttatgtatttgatattattctgatgcccaagt----tgttccctatattgttc-agGTTGGTTACCTATGGTATGAATACATATACAAGCTTGACAAGGTTACATACAACAAATATCATCCCTACACATCGTGGATTCCAATAAC
|| ||||    | |  ||||| ||   | | |||   || |      |||  |||     |||   || |    | |||  |  ||| ||| |||  || || || ||||| ||||| || |||||||| |||||   |||||| ||||| || ||||||||||| |||||||||||||||||
gtaagttccatgatcttctcttgccagtgttgatgcactgactaggatgagtttaaggaaatgattaactacaattttctgttcattcttctagGCCGGCTATCTGTGGTACGAATATATCTACAAGCTGGACAAACATACATATAACAAGTACCATCCCTACACGTCGTGGATTCCAATAAC

upper sequence: AT2G34410.3 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 11
-------------------------------gtgagtttgggttctct--ctggcttatggatcttatgtat-ttgatattattctga-----tgcccaag---------ttgttccctatattgttcagGTTGGTTACCTATGGTATGAATACATATACAAGCTTGACAAGGTTACATACAACAAATATCATCCCTACACATCGTGGATTCCAATAAC
                                ||  |||   |||||    |   ||||   |   || |   ||||| |    |  |     |   ||||         || |    | | || |  ||||||| ||| | ||||||||||||||||||||||| ||||||||  ||||||||||    || |||||||| || ||||||||||| ||
gtgagttacatctcttacaataagattattcatggttttctattctcctgttatgttattacttcaatattccttgatgtagaccaaaatgggtaaacaagaacatctctttttcatttttcttttctagGTTGGGTACTTGTGGTATGAATACATATACAAGCTGGACAAGGTCTCATACAACAAGCTCCACCCCTACACCTCTTGGATTCCAATTAC

upper sequence: AT2G34410.3 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 11
--------------------------------------------gtgagtttgggttctc--tctggcttatggatcttatgta-tttgatattattctga-----tgcccaag--------ttgttccctatattgttcagGTTGGTTACCTATGGTATGAATACATATACAAGCTTGACAAGGTTACATACAACAAATATCATCCCTACACATCGTGGATTCCAATAAC
                                             ||  |||   |||||  | |   ||||   |   || |  |||||| |    |  |     |   ||||        || |   || | || |  ||||||| ||| | ||||||||||||||||||||||| || |||||  ||||||||||    || |||||||| || ||||||||||| ||
gtgagttacatgtcttacaataagattatttgctaagattattcatggttttctattctccttttatgttattacttcaatattctttgatgtagaccaaaatgggtaaacaagaacatctcttttcatctttcttttctagGTTGGGTACTTGTGGTATGAATACATATACAAGCTGGATAAGGTCTCATACAACAAGCTCCACCCCTACACCTCATGGATTCCAATTAC

upper sequence: AT2G34410.3 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------------gtgagtttgggttctctctggcttatggatct-ta-tgtatttgatattattctgatgcccaagttg-ttccctatattgttc-----agGTTGGTTACCTATGGTATGAATACATATACAAGCTTGACAAGGTTACATACAACAAATATCATCCCTACACATCGTGGATTCCAATAAC
                                      |  |||| | || |   || ||| |  || | || | | |||    || || |  |    || ||  ||  |||   ||| |     ||||||||||  | |||||||||||||| |||||||| ||||| |||||||| || || |  |||||||||||||| ||||||||||||||
gtaagttgcatgatcctgtgatcacagtattattcttatctgtttagattttaagtgacttttttatttatactttctttttcttttttttagtttttaatttaattgtctactctgtcctctatagGTTGGTTATTTGTGGTATGAATACATTTACAAGCTGGACAAAGTTACATATAATAAGTTCCATCCCTACACATCATGGATTCCAATAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatcttatgtatttgatattattctgatgcccaagttgttccctatattgttcagGTTGGTTACCTATGGTATGAATACATATACAAGCTTGACAAGGTTACATACAACAAATATCATCCCTACACATCGTGGATTCCAATAAC
                     ttctgat  putative branch site (score: 3)
                                      ttccctat  putative PPT
     tatgtatttgatatta  TA-rich tract