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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttatttgaaaagtttcgttctttccggttttgtgtgtagccaagagacaaatttgcatttctcatacctgttaattgttttcttggaaatgcagGTGCTAGTTTACCATGATCTTCTTGGTATGATGCAACATCCACATCATGCCAAG

Basic information

species Arabidopsis thaliana
transcript AT2G46110.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G46110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os01g12560.1 (Oryza sativa), 3'ss of exon 3
--gttttatttgaaaagtttcgttctttccggttttgtgtgtagccaagagacaaatttgcatttctcatacctgtta-attgttttcttggaaatgcagGTGCTAGTTTACCATGATCTTCTTGGTATGATGCAACATCCACATCATGCCAAG
     ||  ||||| |  |   |||  |    | |  |  |   ||  |      ||    ||||     | |  | |    |   | || | |||||||||  |||||||||||||  |  | || ||||||||||||||||| |||||||||
ttagcttccttgaataaataacttcaataaaatctgctacgagaccttgtcgagtatacaaattttatgaagccctcatgccgaaatatttgtaatgcagGTCTTAGTTTACCATGACTTGTTAGGGATGATGCAACATCCACACCATGCCAAG

upper sequence: AT2G46110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA07G06950.2 (Glycine max), 3'ss of exon 5
gttttatttgaaaagt-ttcgttctttccggttttgtgtgtagccaag---agacaaatttgcatttctcatacctgttaat--tgttttcttggaaatgcagGTGCTAGTTTACCATGATCTTCTTGGTATGATGCAACATCCACATCATGCCAAG
 |||||  | | |  | ||| ||  |    |   ||   | ||||       |  |||   | |   |  |    |  ||||  |||||  |||   |||||||||||||||||||||||||| ||||||||| | ||||| || || ||||| |||
-ttttacattacacttgttctttagtggaagagatgaaagaagccttttctgggtaaag--ggaaagcagaggatttctaattttgtttcattgttcatgcagGTGCTAGTTTACCATGATCTGCTTGGTATGCTACAACACCCTCACCATGCAAAG

upper sequence: AT2G46110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA09G39030.1 (Glycine max), 3'ss of exon 3
-gttttatttgaaaagtttcgttctttccggttttgt--gtgtagccaagagacaaatttgcatttctcatacctgttaattgttttcttggaaatgcagGTGCTAGTTTACCATGATCTTCTTGGTATGATGCAACATCCACATCATGCCAAG
  | ||||   | | | |   |  |       | ||    | ||   | ||   |   |||   |  |||||  |      |  ||  |||   || ||||||||||||| ||||||||| ||||||||| ||||||| ||   |||||| || 
aatattatagcatatgctaactagtcgtaatctctgcccttttatttatgaatgattcttggtgtagtcataattaaattctaattcattgttcatacagGTGCTAGTTTTCCATGATCTGCTTGGTATGCTGCAACACCC---TCATGCTAAA

upper sequence: AT2G46110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G47310.1 (Glycine max), 3'ss of exon 5
gttttatttgaaaagtttcgttctttccggttttgtg-----tgtagccaagagacaaatttgcatttctcatacctgttaattgttttcttggaaatgcagGTGCTAGTTTACCATGATCTTCTTGGTATGATGCAACATCCACATCATGCCAAG
     | || | |  |     |||  |   | || ||     |||     |   | ||  ||    || | ||   ||     |  ||| |||   |||||||||||| ||| ||| ||||| ||||||||| ||||||||||   |||||| || 
--aacaatttacagctcagtatctcactaatattatggcatatgttaattaatcataatcttttgctttttatttatgaattctaatttattgttcatgcagGTGCTACTTTTCCACGATCTGCTTGGTATGCTGCAACATCC---TCATGCTAAA

upper sequence: AT2G46110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv15s0046g02170.t01 (Vitis vinifera), 3'ss of exon 3
gttttatttgaaaagttt-----cgttctttccggttttgtgtgtagccaagagacaaatttg--catttctcatacctgttaattgttttcttggaaa-tgcagGTGCTAGTTTACCATGATCTTCTTGGTATGATGCAACATCCACATCATGCCAAG
     || |||| |  ||     | | |||||  | | |   || |        ||     ||  || ||||   ||     | ||   ||     | | ||||||||||||||||||||||||| || || ||||||||||| ||||||||||| |||
-----atctgaagatcttgtcagcttgctttcttgctcttcttggaaaagttgcactctactgatcaattctttgacacaaaacttccctttcaatatactgcagGTGCTAGTTTACCATGATCTGCTGGGAATGATGCAACACCCACATCATGCTAAG

upper sequence: AT2G46110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S130_272V6.4 (Physcomitrella patens), 3'ss of exon 5
----------------------------------------------------------------gttttatttgaaaa-gtttcgttctttccggttttgtgtgtagccaagagacaaatttgcatttctcatacctgttaattgttttcttggaaatg-----cagGTGCTAGTTTACCATGATCTTCTTGGTATGATGCAACATCCACATCATGCCAAG
                                                                |  |  ||||  |   ||| |  |||||   || ||  ||     ||     || |||   ||| |        ||  ||||||  ||  |  ||     |||||  | || |||||||||||||| |||||||||||||| || |||   |   ||
gtagtacgtctctcataacctttctcttttccttcacccatgcttgtcgacacttgccaatcaagcctgttttggcagcatttggggctttct--ttgtggttgattttaatttctaagtttttgtttgtttgtttgtttgtttgtttgttttaatgtgttttacagGTCTTGGTGTACCATGATCTTCTCGGTATGATGCAACACCCCCATTTCGTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaagagacaaatttgcatttctcatacctgttaattgttttcttggaaatgcagGTGCTAGTTTACCATGATCTTCTTGGTATGATGCAACATCCACATCATGCCAAG
                             tgttaat  putative branch site (score: 3)
                                      ttttcttg  putative PPT
                               ttaattgttttctt  TA-rich tract