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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatattgaagggccgatagattatgtatcttacgcttatatgtatttcaatacttaacacgtattactttattttgtgtttgttttgtgacatataccagGTCTGGGCAAGAATATGGTCTGTCCTTGCCGAACATTTCGTATCTGCTGGTAGCCATCATGATGAAAAGATTGCAATGTATGCCATAGATTCTCTGAGAC

Basic information

species Arabidopsis thaliana
transcript AT3G43300.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GLYMA13G17610.1 (Glycine max), 3'ss of exon 22
aatattgaagggccgatagattatgtatcttacgcttatatgtatttcaatacttaacac--gtattactttattt-tgtgtttgttttgtgacatataccagGTCTGGGCAAGAATATGGTCTGTCCTTGCCGAACATTTCGTATCTGCTGGTAGCCATCATGATGAAAAGATTGCAATGTATGCCATAGATTCTCTGAGAC
 || |  ||        |  || ||  |||  | ||| ||   || |      || |  |   | | | |  |||| |  | |    |||| |  | |  ||||||||||| ||||| ||||||||||| ||  | || ||  |||| || || || ||||||||||| || ||||| |||||||||||||||||||| ||||
-atctgtaaacattatca--ttgtgcttctatcccttgtaataatattgtcttttgatgctgctctgaatgcatttctaagctctaattgttatgtttttcagGTCTGGGCTAGAATCTGGTCTGTCCTAGCAAATCACTTTATATCAGCAGGGAGTCATCATGATGAGAAAATTGCTATGTATGCCATAGATTCTCTAAGAC

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 22
aatattgaagggccgatag-attatgtatcttacgcttatatgtatttcaatacttaacac--gtattactttattt-tgtgtttgttttgtgacatataccagGTCTGGGCAAGAATATGGTCTGTCCTTGCCGAACATTTCGTATCTGCTGGTAGCCATCATGATGAAAAGATTGCAATGTATGCCATAGATTCTCTGAGAC
     |      || |||  ||| ||  ||   | | | ||   || |      || |  |   | | | |  |||| |  | |    || | |    |  ||||||||||| ||||| ||||||||||| ||  | || ||  |||| || || || ||||||||||| || ||||| |||||||||||||||||||| ||||
----atctgttaccaatatcattgtgcttccatctcctgtaataatattttcttttgatgctgctctgaatgcatttctaagctctcgttattatgcttttcagGTCTGGGCTAGAATCTGGTCTGTCCTAGCAAATCACTTTATATCAGCAGGGAGTCATCATGATGAGAAAATTGCTATGTATGCCATAGATTCTCTAAGAC

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 22
---aatattgaagggccgatagattatgtatcttacgcttatatgtattt-caatacttaacacgtattactttattttgtgtttgttttgtgacatataccagGTCTGGGCAAGAATATGGTCTGTCCTTGCCGAACATTTCGTATCTGCTGGTAGCCATCATGATGAAAAGATTGCAATGTATGCCATAGATTCTCTGAGAC
   ||| ||   | |   | || | |||  |  |    || | |||   |     ||||      | ||| | | ||    |||| | |||  ||||||  ||||||||||| ||||||||||||||||| ||  | |||||  |||||||||| ||||||||||| || || ||||| |||||||| ||||||||||| || |
atcaattttcttgaggtta-agctaatgctttctttagttgtttgtgcctattgcacttg---tttgttaatgttttaaaagtttttattgatacatatttcagGTCTGGGCTAGAATATGGTCTGTCCTAGCTAATCATTTTATATCTGCTGGGAGCCATCATGACGAGAAAATTGCTATGTATGCTATAGATTCTCTAAGGC

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: PP1S122_29V6.1 (Physcomitrella patens), 3'ss of exon 6
---------------------------------aatattgaagggccgatagattatgtatctta-cgcttatatgtatttcaatacttaacacgtattactttattttgtgtttgttttg----tgacatatac-----cagGTCTGGGCAAGAATATGGTCTGTCCTTGCCGAACATTTCGTATCTGCTGGTAGCCATCATGATGAAAAGATTGCAATGTATGCCATAGATTCTCTGAGAC
                                 || ||||||    |   |  |||| |  ||||    ||  |  | ||||   ||  || || |   | ||| ||| | || | || ||    |||  |  ||     ||||| ||||  | ||||||| | || ||  |    ||||| ||  | || || |||||  | |||||||||||||||||||| || ||||||||| |||| |
gtaactactcctacatcctagtgtatgttgtttaaaattgaa---tcatcatgttatttcacttaatattttcacat-tttctccacccaatacatga-agtttttttggagtgtcttatgaatctgatgtccacaactacagGTGTGGGGCAAAATATGGGCAGTACTCTCGTTGCATTTTGTTGCGGCAGGGAGCCACGACGATGAAAAGATTGCAATGTACGCTATAGATTCTTTGAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaatacttaacacgtattactttattttgtgtttgttttgtgacatataccagGTCTGGGCAAGAATATGGTCTGTCCTTGCCGAACATTTCGTATCTGCTGGTAGCCATCATGATGAAAAGATTGCAATGTATGCCATAGATTCTCTGAGAC
      acttaac  putative branch site (score: 3)
                tattactttattttgt  TA-rich tract