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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccctagtttcctgtaagcatctttttgacatgggcatcatgtattgctgaattgatggttttctacaatgttacttacttcagctgtatctttttgcagCCTCCTGCTCTCAAGATGGGTACAATGATGGGAGTTTTCGTTCCCTGCTTGCAAAACATATTAGGAATTATATATTATATCCGTTTCACATG

Basic information

species Arabidopsis thaliana
transcript AT1G30450.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G30450.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os08g23440.1 (Oryza sativa), 3'ss of exon 4
tccctagtttcctgtaagcatctttttgacatgggcatcatgtattgctgaattg-atggttttctacaatgtt-acttacttcagctgtatctttttg-cagCCTCCTGCTCTCAAGATGGGTACAATGATGGGAGTTTTCGTTCCCTGCTTGCAAAACATATTAGGAATTATATATTATATCCGTTTCACATG
      |||   ||  | |||  |||||   |    ||  ||||||  |  || | ||     | ||  | |||   || | | |  | | |   | || |||    |||  | |||| | ||||| |||||||| || || || || |||||||| || ||||| ||||| || |||||||||||||| |||||
-attctgttcattgccatcat--ttttgttctttttattttgtatttgttcatggcatttgagtttatgacgtttgattccattacttttgttggtctggcagGAAACTGGACCCAAGTTTGGTACCATGATGGGTGTCTTTGTCCCATGCTTGCAGAATATATTGGGAATCATTTATTATATCCGTTTTACATG

upper sequence: AT1G30450.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G432083_T01 (Zea mays), 3'ss of exon 1
tccctagtttcctgtaagca---tctttttgacatgggcatcatgtattgctgaattgatggttttcta-caatgttacttacttcagctgtatctttttgcagCCTCCTGCTCTCAAGATGGGTACAATGATGGGAGTTTTCGTTCCCTGCTTGCAAAACATATTAGGAATTATATATTATATCCGTTTCACATG
    | | ||   || | ||   ||  ||  |  | | | |     ||||  ||| ||||     | || ||  |    ||||||    | | | ||| | |||     ||  |  ||| | || || |||||||| || || ||||| |||||||| ||||| || ||||| || |||||||||||||| || ||
-ttgttgattttagtgaccaaattccattccattttgacttatgaaattgtagaagtgatatacctatatcagaggagtttacttt---tatttttttgtacagGAAAGTGGACCTAAGTTCGGCACCATGATGGGTGTCTTTGTTCCATGCTTGCAGAACATCTTGGGAATCATTTATTATATCCGTTTTACCTG

upper sequence: AT1G30450.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv10s0003g04530.t01 (Vitis vinifera), 3'ss of exon 3
-tccctagtttcc--tgtaagcatctttttgacatgggcatcatgtattgctgaattgatggttttctacaatgttacttacttcagctgtatctttt-tgcagCCTCCTGCTCTCAAGATGGGTACAATGATGGGAGTTTTCGTTCCCTGCTTGCAAAACATATTAGGAATTATATATTATATCCGTTTCACATG
 |    | ||  |  ||||| ||    ||   |||| | |||   | || |     |||||  |   |||  | | |  |  || |  | ||| | |  ||||| ||  || ||||||  | || ||| |||||||||| || || || |||||||||||||| ||||||||||| || ||||| || ||  | ||
cttgaaaattgacaatgtaatcaaagcttatgcatgcggatctctttttcca----tgatgtgtagataccttttcatgtttttgacatatatttatcatgcagGCTAATGATCTCAAATTAGGGACATTGATGGGAGTATTTGTGCCGTGCTTGCAAAACATTTTAGGAATTATCTACTATATACGATTTTCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctgaattgatggttttctacaatgttacttacttcagctgtatctttttgcagCCTCCTGCTCTCAAGATGGGTACAATGATGGGAGTTTTCGTTCCCTGCTTGCAAAACATATTAGGAATTATATATTATATCCGTTTCACATG
                           tacttac  putative branch site (score: 1)
                                          tatcttttt  putative PPT
                                          tatcttttt  TA-rich tract