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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaattgcaggctcttcatttattcatatgtaactgttttcgtcccagttgcaaatccaactttttacttcttcatctttgctaatcttcatttgcttattgtcttttatttgcagGTGGGTTGCAAGCTCATTGGATTTCGACAAGGATTATGACGCCAGTATGTTTGAGACAACCATAAG

Basic information

species Arabidopsis thaliana
transcript AT1G51590.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G23730.1 (Glycine max), 3'ss of exon 4
gtgagtaattgcaggctcttcatttattcatatgtaactgttttcgtcccagttgcaaatccaactttttacttcttcatctttgctaatcttcatttgcttattgtcttttatttgcagGTGGGTTGCAAGCTCATTGGATTTCGACAAGGATTATGACGCCAGTATGTTTGAGACAACCATAAG
        || |||   |||  | |||||||      ||||||       | |||  |  |     | ||  || | | |  |||| | || |  |     ||     ||    |  ||| |||||||||| ||| ||||||||  ||||||||||||| || ||| | |||||||||||||||||
--------tttcagttgcttgctatattcat------ctgtttaatatttaattgtgatac-----tcttggttatgctttgttgc-attccttgtcataataagaaattgctctgacagATGGGTTGCAAACTCTTTGGATTTTAACAAGGATTATGAAGCAAGTGTTTTTGAGACAACCATAAG

upper sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G02290.1 (Glycine max), 3'ss of exon 3
gtgagtaattgcaggctcttcatttattcatatgtaactgttttcgtcccagttgcaaatccaactttttacttcttcatctttgctaatcttcatttgcttattgtcttttatttgcagGTGGGTTGCAAGCTCATTGGATTTCGACAAGGATTATGACGCCAGTATGTTTGAGACAACCATAAG
                  ||  || | |    ||   |||| ||| ||   |||  || |   |     |   |  |  | | |   | || |  |     ||     ||    |  ||| |||||||||| ||| ||||||||  ||||||||||||| || ||| | |||||||||||||||||
--------------atatttgtttcagttgcttg---ctgtattcatct--gtt-taattgtgataccctgggttatgctttgttgcattccttgtcataataagaaattgctctgacagATGGGTTGCAAACTCTTTGGATTTTAACAAGGATTATGAAGCAAGTGTTTTTGAGACAACCATAAG

upper sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 4
gtgagtaattgcaggctcttcatttattcatatgta-actgttttcgtcccagttgcaaatccaactttttacttcttcatctttgctaatcttcatttgcttattgt-cttttatttgcagGTGGGTTGCAAGCTCATTGGATTTCGACAAGGATTATGACGCCAGTATGTTTGAGACAACCATAAG
                      ||| ||| |  | | | |   | | | ||  | | |  ||    ||| || || |     ||   |   || | |     || ||| || ||  | ||||||||||||||| ||||||||||||| ||||| ||||||| || ||| | |||||||| ||||||||
----------------------ttttttccttagcacattaaatacatgcctatggtatttcatgttttgtagttttggtaattcaatttcctgcttaatactaatgtgctattcatggcagGTGGGTTGCAAACTCATTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAG

upper sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv11s0052g00140.t01 (Vitis vinifera), 3'ss of exon 4
-------------------------------------------gtgagtaattgcaggctcttcatttattcatatgtaactgtt--ttcgtc-----------ccagttgcaaatccaactt---tttacttcttcatctt-----tgctaatcttcatttgct-tattgtcttttattt---gcagGTGGGTTGCAAGCTCATTGGATTTCGACAAGGATTATGACGCCAGTATGTTTGAGACAACCATAAG
                                            ||  ||| || |    |||||| |  |  |||    |||||  || |             ||| |||   ||  |  ||   |||   | || | |||     || || |  | |   |   |  || || | |||    ||||||||||||||| ||| ||||||||| ||||| | ||||| || ||| | |||||||||||||||||
gtgagtttatattttttttccttctctttttccccttcccttcttgtctaaatgtatatgcttcatcttcttctattgggctgttactttgctatctgatttctccatttggggatgtattttaaatttgaatttttagcttggaattgatagtacttaaaagtagtcatgactgtaattcatggcagGTGGGTTGCAAACTCGTTGGATTTCAACAAGAACTATGAGGCTAGTGTTTTTGAGACAACCATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttacttcttcatctttgctaatcttcatttgcttattgtcttttatttgcagGTGGGTTGCAAGCTCATTGGATTTCGACAAGGATTATGACGCCAGTATGTTTGAGACAACCATAAG
                  tgctaat  putative branch site (score: 2)
                                         tcttttattt  putative PPT
                                   ttattgtcttttattt  TA-rich tract