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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcatctacctcaggttgatttcactgggacagaatggaaccttctcatggtctgttgcaaataattgaaaataacaaaatgttttctccttattatagGGCGTACCTGAACGGGTAACTGATGAGGTGTTCATAGCAATGTCTAAGGCACTAAACTTCATCAATCCTGATGAACTTTCAATGCAATGTATATTGATTG

Basic information

species Glycine max
transcript GLYMA18G00720.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 3'ss of exon 7
tttcatctacctcaggttgatttcactgggacagaatggaaccttctcatggtctgttgcaaataattgaaa--ataac--aaaatgttttctccttattatagGGCGTACCTGAACGGGTAACTGATGAGGTGTTCATAGCAATGTCTAAGGCACTAAACTTCATCAATCCTGATGAACTTTCAATGCAATGTATATTGATTG
    |   |   ||   |   |   ||              | ||| | |  | ||    ||   ||| | |   |  |  | |  ||| | |  | |  | |||| || ||||| || || |  |||||||| ||||| |||||||| |||||||| || ||||| |||||||||||  | || ||||| || ||  ||||||
----acagaaaacacaatacatatgctatagttatcaatctctttccctttttttgggataacggattaatatggtgcctgatacagttgtttgatcagcacagGGTGTTCCTGATCGAGTGAACGATGAGGTTTTCATTGCAATGTCAAAGGCACTTAATTTCATAAATCCTGATGAGTTATCCATGCAGTGCATTCTGATTG

upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G410515_T01 (Zea mays), 3'ss of exon 7
----tttcatctacctcaggttgatttcactgggacagaatggaaccttctcatggtctgttgcaaataattgaaaataacaaaatgttttctccttattatagGGCGTACCTGAACGGGTAACTGATGAGGTGTTCATAGCAATGTCTAAGGCACTAAACTTCATCAATCCTGATGAACTTTCAATGCAATGTATATTGATTG
     |   | ||| |    ||      ||   ||  | |    | | |   || || | | |       | |    | ||| |||  | | |  | |  | |||| || ||||| ||||| |  |||||||| || || |||||||| |||||||| || ||||| ||||||||||| || || ||||| || || |||||||
agatatggttttactttccatttggaatac--agatggtaatatatccttctattgtttatggagccatgtggtgcctgacacaat--tatttgatcagcacagGGTGTTCCTGATCGGGTGAACGATGAGGTTTTTATTGCAATGTCCAAGGCACTCAATTTCATAAATCCTGATGAGCTATCTATGCAGTGCATTTTGATTG

upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 2
lower sequence: AT4G14210.1 (Arabidopsis thaliana), 3'ss of exon 7
--tttcatctacctcaggttgatttcactgggacagaatggaaccttctcatggtctgttgcaaataattgaaaataacaaaatgttttctccttattatagGGCGTACCTGAACGGGTAACTGATGAGGTGTTCATAGCAATGTCTAAGGCACTAAACTTCATCAATCCTGATGAACTTTCAATGCAATGTATATTGATTG
    |  ||||   || || | | |    |   ||   | |  | |   | |   ||   ||| |||||   | ||    |    || | | ||| |   |||| |||||||| || || || || |||||||| || || ||||| ||||| |||||||| || || ||||||||||| ||||||||||| || ||||| |
tgacttttctagtccatgtggttgttgtggtttcattgtcgtgcatgtgctttcact-cagcagataataatacattctgattaattgtatacttgtc-cagGGAGTACCTGAGCGCGTGACCGACGAGGTGTTTATTGCCATGTCAAAGGCGCTAAACTTTATAAACCCTGATGAACTGTCAATGCAATGCATTTTGATAG

upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 2
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 7
tttcatctacctcaggttgatttcactgggacagaatggaaccttctcatggtctgttgcaaataattgaaaataacaaaatgttttctccttattatagGGCGTACCTGAACGGGTAACTGATGAGGTGTTCATAGCAATGTCTAAGGCACTAAACTTCATCAATCCTGATGAACTTTCAATGCAATGTATATTGATTG----
  |  ||||   || || | | |    |   ||   | |  | |   | |   ||   ||| |||||   | ||    |    || | | ||| |   |||| |||||||| || || || || |||||||| || || ||||| ||||| |||||||| || || ||||||||||| ||||||||||| || ||||| |    
--ttttctagtccatgtggttgttgtggtttcattgtcgtgcatgtgctttcact-cagcagataataatacattctgattaattgtatacttgtc-cagggagTACCTGAGCGCGTGACCGACGAGGTGTTTATTGCCATGTCAAAGGCGCTAAACTTTATAAACCCTGATGAACTGTCAATGCAATGCATTTTGATAGCTTT

upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 7
tttcatctacctcaggttgatttcactgggacagaatggaaccttctcatggtctgttgca-aataattgaaaataacaaaatgttttctcct-----tattatagGGCGTACCTGAACGGGTAACTGATGAGGTGTTCATAGCAATGTCTAAGGCACTAAACTTCATCAATCCTGATGAACTTTCAATGCAATGTATATTGATTG
    || ||  |   | ||  || | |    | |  |  |      | | | |   || || || |||| ||||| || ||  ||||||| ||     | ||  ||||  | ||||| || ||||| |||||||| ||||| || ||||| |||||||| |||||||| ||||| ||||||||||| ||||| |||||||||||||
---gatttatgttgagctggattgaatt---ctgtgtctattaagttaaggttaaatttcagaaaaatttaaaatcaccaatggttttcttctctctctttttcagGGTATTCCTGATCGAGTAACAGATGAGGTTTTCATTGCCATGTCCAAGGCACTGAACTTCATAAATCCGGATGAACTTTCGATGCAGTGTATATTGATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcatggtctgttgcaaataattgaaaataacaaaatgttttctccttattatagGGCGTACCTGAACGGGTAACTGATGAGGTGTTCATAGCAATGTCTAAGGCACTAAACTTCATCAATCCTGATGAACTTTCAATGCAATGTATATTGATTG
                         aaataac  putative branch site (score: 2)
                                    tgttttctccttatt  putative PPT
               aaataattgaaaataa  TA-rich tract