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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaagttgcctctgacgtcttacttaatttaatgagctgacctaagtgagttagttggttatgcatagggaactactaggaaattcagaagtgttaatttccatcgtctcattggttgttagGGAATGGAACAATGGAGAAATTGAAACAACTTTTTGCCTCATCAAGCCAGATGTATGGTGCTTTAACTTTGGATTTGCACTGCAATCGATTTGGTCCAAC

Basic information

species Arabidopsis thaliana
transcript AT3G18730.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G18730.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G15560.1 (Glycine max), 3'ss of exon 12
gtgaaagttgcctctgacgtcttacttaatttaatgagctgacctaagtgagttagttggttatgcatagggaactactaggaaattcagaagtgttaatttccatcgtctcattggt-tgttagGGAATGGAACAATGGAGAAATTGAAACAACTTTTTGCCTCATCAAGCCAGATGTATGGTGCTTTAACTTTGGATTTGCACTGCAATCGATTTGGTCCAAC
            | |||   || |    ||  || ||  | |  ||  | |   | |   | |||  | || | ||| |    | ||        |    ||  || |  |   |  | | ||||| ||||||||||| |||||| || || |  | ||  |  ||||| | ||    |||||||  |||||| |||||||||| |||||||||||||| |||||
------------tttgaaaactaaaaccatgaaaagaattaaaatagataaa--aat--ataatg--tgggaatctattgaatagttt-------tagccttttattgagttgataatattttagGAAATGGAACAATCGAGAAACTGCAAAAGGTGTTCACAGCATCAGGACAATCTTATGGTGGCTTAACTCTGGATTTGCATTGCAATCGATTTGGCCCAAC

upper sequence: AT3G18730.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA05G32290.1 (Glycine max), 3'ss of exon 12
gtgaaagttgcctctgacgtcttacttaatttaatgagctgacctaagtgagttagttggttatgcatagggaactactaggaaattc----agaagtgttaat-ttccatcgtctcattggt-tgttagGGAATGGAACAATGGAGAAATTGAAACAACTTTTTGCCTCATCAAGCCAGATGTATGGTGCTTTAACTTTGGATTTGCACTGCAATCGATTTGGTCCAAC
                             ||| |  |    | | | |  |   | |     ||  |||   ||  || ||| |||      |  ||| |||   ||  || |  |   |  | | ||||| ||||||||||| || ||| |  || |  | ||  |  ||||| | ||    |||||||  |||||| |||||||||| |||||||||||||| |||||
----------------------------gtttgaaaactaaaaccatgaaaagaattaaa--atagataaaaaataacgagggaatctattaaatagttttagccttttattgagttgataatattttagGAAATGGAACAATCGAAAAACTTCAAAAGGTGTTCACAGCATCAGGACAATCTTATGGTGGGTTAACTCTGGATTTGCATTGCAATCGATTTGGCCCAAC

upper sequence: AT3G18730.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv04s0044g00860.t01 (Vitis vinifera), 3'ss of exon 12
---------------------------------------gtgaaa-gttgcctctgacgtcttacttaatttaatgagctgacc--taagtga-gttagttggttatgcatagg----gaactactaggaaattcagaagtgttaatttccatcgtctcattggttgttagGGAATGGAACAATGGAGAAATTGAAACAACTTTTTGCCTCATCAAGCCAGATGTATGGTGCTTTAACTTTGGATTTGCACTGCAATCGATTTGGTCCAAC
                                       ||||   ||||  ||||     | |   |  ||| | |  |  |   ||| |||    ||||    ||||||       ||  | ||  | |  | |  ||| |    || | | |  |  ||   |   |||||||||||||||||||||| |  ||||| | ||    |||||| |||| |  |||||||  ||  ||||||||||||||||||||||||||||||| ||
gtaatgttatctggtttcatggccatatgttctctgattgtgatgtgttggttctgg-acttaaagcatattactcacttatctcttaaatgatagcagttctccatgcattttttctgattttctttgga--taaatagtatct-cttactttgagtttttatctcccagGGAATGGAACAATGGAGAAACTTCAACAAGTATTCATATCATCAGGCCAAAAATATGGTGGCTTGGCTTTGGATTTGCACTGCAATCGATTTGGTCCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggaactactaggaaattcagaagtgttaatttccatcgtctcattggttgttagGGAATGGAACAATGGAGAAATTGAAACAACTTTTTGCCTCATCAAGCCAGATGTATGGTGCTTTAACTTTGGATTTGCACTGCAATCGATTTGGTCCAAC
                        tgttaat  putative branch site (score: 3)
                                       tctcatt  putative PPT
                        tgttaattt  TA-rich tract