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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgtatatgcttccaataattgtttcagacagactgttcttagaagtcttagatgatggaaaatgtatctccacatttgataaccttttcggaacaattttctctttatccagGAAAGAGATAACATGCAAAAGTCCGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGATTTTGATTCCCGTGTATTACGGTATAAG

Basic information

species Arabidopsis thaliana
transcript AT1G71410.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G061681_T02 (Zea mays), 3'ss of exon 6
gtacgtgtatatgcttccaataattgtttcagacagactgttcttagaagtcttagatgatggaaaatgtatctccacatttgataaccttttcggaacaattttctctttatccagGAAAGAGATAACATGCAAAAGTCCGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGATTTTGATTCCCGTGTATTACGGTATAAG
          |  |  |    ||  || |  | | |  ||     ||||   | | |||    ||  ||  |  | | | | |      ||||    | ||  |||  ||    ||||| |||||||| ||||| ||| | ||||| || || |||||||||||||||||||| |||||||||||||| ||  | || ||||| 
--------caacacagcaggaaagagtctt-gcctgcttgactagagaa---tgaaatggcacaatttg-gtacctaaaatggtcctgatttttaagataacattccttt----cagGAGAGAGATAATATGCAGAAGACAGAGTTTTTGAAGGCATTATCAGATATGTGGAAGGATTTTGATTCCCGAGTTCTTCGATATAAA

upper sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA09G00470.1 (Glycine max), 3'ss of exon 6
gtacgtgtatatgcttccaataattgtttcagacagactgttcttagaagtcttagatgatggaaaatgtat-ctccacatttgataaccttttcggaacaattttctctttatccagGAAAGAGATAACATGCAAAAGTCCGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGATTTTGATTCCCGTGTATTACGGTATAAG
                   |  ||| ||| ||     |   | |||| | |   | ||| |  || ||| |   |  | | ||||    |||   |      |  ||  ||  | |||||||||||||||||||| ||||| ||||||||||||||||| |||||||||||||||||||||||||| |||||||| || || |||
-----------------gtaagatttttttagtttagcc--ttttagcattacaaaatg-tataacatgcaaattttagagttgaagttcttgatgatgtg-tcctcctttccttcagGAAAGAGATAACATGCAGAAGTCAGAGTTCTTAAAAGCATTGTCAGATATGTGGAAAGATTTTGATTCACGTGTATTGCGATACAAG

upper sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 6
gtacgtgtatatgcttccaataattgtttcagacagactgttcttagaagtcttagatgatggaaaatgtatctccacatttgataaccttttcggaacaattttctctttatccagGAAAGAGATAACATGCAAAAGTCCGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGATTTTGATTCCCGTGTATTACGGTATAAG
                   |  ||| ||  ||     |   | |||| | |   | ||| |   |     || |  | | ||||    |||   |      | |||  ||  | |||||||||||||||||||| ||||| ||||||||||||||||| |||||||||||||||||||||||||| || ||||| || ||||||
-----------------gtaagatttttctagtttagcc--ttttagcattacgaaatgttaacatgcaaatttt-agagttgaagttcttgatgatgtg-tcttcctttccttcagGAAAGAGATAACATGCAGAAGTCAGAGTTCTTAAAAGCATTGTCAGATATGTGGAAAGATTTTGATTCGCGCGTATTGCGATATAAG

upper sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 6
gtacgtgtatatgcttccaataat------tgtttcagacagactgttcttagaagtcttagatgatggaaaatgtatctccacatttgataacc------ttttcggaacaa-ttttctctttatccagGAAAGAGATAACATGCAAAAGTCCGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGATTTTGATTCCCGTGTATTACGGTATAAG
||| |    |||  |||     ||      || ||  |||| |   ||  || ||  | | |   |||  ||    |  |    | ||| |  |       | |  | ||||| |||| | ||| | |||||||| ||||||||||| ||||| |||||  ||||||||||||| |||||||||||||||||||| || ||||| || || ||||||
gtatgaagttatatttctttggatgtcacctgcttttgacataagattactaaaaaacattgtgcatgagaaggaaaaataagaagttggtggcaatggaatctgagtaacaaattttatttttttgcagGAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaatgtatctccacatttgataaccttttcggaacaattttctctttatccagGAAAGAGATAACATGCAAAAGTCCGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGATTTTGATTCCCGTGTATTACGGTATAAG
                   tgataac  putative branch site (score: 2)
                                       ttttctctttatcc  putative PPT
                                     aattttctctttat  TA-rich tract