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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatacaattcattccacaaaaagctctcgtcattgtacttgataatccgcatctaaaatcttggttctcttgcagATGATGTGGAGGCTGAACTTCTTTGTAGCGTTTTGCTGTATTGTTCTCAACAACGACTATATGTTATACTACATCTGCCCAATGCACACTCTTTTCACCC

Basic information

species Arabidopsis thaliana
transcript AT5G46340.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G46340.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 8
------------------------------gtgataca----attcattccacaaaaagctctcgtcattgtacttg-ataatc--cgcatctaaaatcttggt-tctcttgcagATGATGTGGAGGCTGAACTTCTTTGTAGCGTTTTGCTGTATTGTTCTCAACAACGACTATATGTTATACTACATCTGCCCAATGCACACTCTTTTCACCC
                              |   |||     || ||||    |      ||   | | | |  ||| |||| |     | ||||    ||    | ||||||||||||||||| |||| || || ||||| || || || |||||||| || ||||| ||||||||| | ||||| || |||||||||||||| ||||||||  
gtaagagtcattgaccttaaataccattttgctttacttggtatccattgtctatccttttcctattactctttttgcataaacaatatacctaactcgttaaaatttcttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT

upper sequence: AT5G46340.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 8
-------------------------------gtgatacaattcat-tccacaaaaagctctc-----gtcattgtacttg-ataatccgcat--ctaaaatcttggt-tctcttgcagATGATGTGGAGGCTGAACTTCTTTGTAGCGTTTTGCTGTATTGTTCTCAACAACGACTATATGTTATACTACATCTGCCCAATGCACACTCTTTTCACCC
                                || |  | ||  | |||||        ||      || | | |  ||| |||| |   ||  ||||    ||    |  |||||||||||||||| |||| || || ||||| || || || |||||||| || ||||| ||||||||| | ||||| || |||||||||||||| ||||||||  
gtaatagagtccttgaccttaaataccatttttgctttactttgtgtccactgtctatccttttcctgttactctttttgcataaacaatatacctaactcgttaaaattccttgcagATGATGTGGCGGCTTAATTTTTTTGTGGCCTTCTGTTGTATTGTGCTTAACAATGACTATATGCTCTACTATATATGCCCAATGCACACGCTTTTCACTT

upper sequence: AT5G46340.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------gtgatacaat-tcattccacaaaaagctctcgtcattgtacttgataatccgcatctaaaatcttggttctct--tgcagATGATGTGGAGGCTGAACTTCTTTGTAGCGTTTTGCTGTATTGTTCTCAACAACGACTATATGTTATACTACATCTGCCCAATGCACACTCTTTTCACCC
                                          ||    || |  ||||     |   |||     |     ||||||||          ||||||   | |||  |||||||||||||| |||| || |||||||| || |||||||| |||||||| ||||| ||||| ||| ||||||| |||||||| |||||||| |||||||| |
gtgaccttgttaattctgaactgtttcatcatttctctattagaagtgatattgttccttttcattttctatatttcaattttgataatttaggatgtgaatctttactttctaatgcagATGATGTGGCGGCTAAATTTCTTTGTGGCATTTTGCTGCATTGTTCTTAACAATGACTACATGCTATACTATATCTGCCCCATGCACACGCTTTTCACTC

upper sequence: AT5G46340.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S5_239V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------gtgatacaattcattccacaaaaagctctcgtca-ttg-tacttgataatccg---catctaaaatcttggttc-----tcttgcagATGATGTGGAGGCTGAACTTCTTTGTAGCGTTTTGCTGTATTGTTCTCAACAACGACTATATGTTATACTACATCTGCCCAATGCACACTCTTTTCACCC
              |||     |  | || |  |    |  |  | | ||| | || ||||||| |   |||  |    || |||||     | | ||||||||||||| |||| || ||| | ||    ||| |||| ||||| || ||||| ||||| ||| | ||||||||||| |||||||||||||| ||||| |
ttcgcgatctgctttgagggtgtggaatcaagtatcgtccattcttagttgcttctggataatcggagtcatgcactgactgggttcgatgatttggcagATGATGTGGCGGCTCAATTTCCTGGTCTTCTTTAGCTGCATTGTACTGAACAATGACTACATGCTCTACTACATCTGTCCAATGCACACTCTCTTCACTC

upper sequence: AT5G46340.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: EFJ29067 (Selaginella moellendorffii), 3'ss of exon 7
gtgatacaattcattccacaaaaagctctcgtcattgtacttgataatccgcatctaaaatcttggttctcttgcagATGATGTGGAGGCTGAACTTCTTTGTAGCGTTTTGCTGTATTGTTCTCAACAACGACTATATGTTATACTACATCTGCCCAATGCACACTCTTTTCACCC
                       | ||    || ||| ||| |  | | |     |    | |     | ||||||||||||||||||||| |||||  ||||  | |||||||| || || |||||||||  ||| ||| | ||||||||||| || ||||| || || |||||  
---------------------gtaactgct-tctttgcactcgtaagttcatgctt----tgtgaacgcacttgcagATGATGTGGAGGCTCAACTTTCTTGTGACCTTTTGCTGCATCGTCCTCAACAACAGCTACATGCTCTACTACATCTGTCCTATGCATACCCTCTTCACAT

upper sequence: AT5G46340.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: EFJ17601 (Selaginella moellendorffii), 3'ss of exon 6
gtgatacaattcattccacaaaaagctctcgtcattgtacttgataatccgcatctaaaatcttggttctcttgcagATGATGTGGAGGCTGAACTTCTTTGTAGCGTTTTGCTGTATTGTTCTCAACAACGACTATATGTTATACTACATCTGCCCAATGCACACTCTTTTCACCC
                       | ||    || ||| ||| |  | | |     |    | |     | ||||||||||||||||||||| |||||  ||||  | |||||||| || || |||||||||  ||| ||| | ||||||||||| || ||||| || || |||||  
---------------------gtaactgct-tctttgcactcgtaagttcatgctt----tgtgaacgcacttgcagATGATGTGGAGGCTCAACTTTCTTGTCACCTTTTGCTGCATCGTCCTCAACAACAGCTACATGCTTTACTACATCTGTCCTATGCATACCCTCTTCACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagctctcgtcattgtacttgataatccgcatctaaaatcttggttctcttgcagATGATGTGGAGGCTGAACTTCTTTGTAGCGTTTTGCTGTATTGTTCTCAACAACGACTATATGTTATACTACATCTGCCCAATGCACACTCTTTTCACCC
                              atctaaa  putative branch site (score: 3)
                                            ttctcttgc  putative PPT
                              atctaaaat  TA-rich tract