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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttattatgaaataataaataccaaacctaccttttaaggctgaagaaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG

Basic information

species Glycine max
transcript GLYMA02G01930.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01930.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 8
-ttattatgaaataataaataccaaacctaccttttaaggctgaagaaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
 |  ||  | | || |    | || |       ||  | |||  |   ||   ||   ||   |  |  |||| |   | |||    |   |    ||||| ||||||||||| ||||| || ||||| |||||||||||||| || || ||||| || ||||| || |||||||| || |||
ttggtttaggattactttgaaacagagtgttaattccatgctttacctaaggcgttcctttcatttatttaaataccta-aatccaatctgtctttttcagATTTGATGCCAAAATAGCTGCTGCAGTGGCTGAGGAAACAAACCTACCCTTTGTGACAGCAGAGAACAAGTTTGAAGCTTTG

upper sequence: GLYMA02G01930.2 (Glycine max), 3'ss of exon 8
lower sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 9
-------ttattatgaaataataaataccaaacctaccttttaagg----ctgaagaaaatatgtggtttaactaaaga------taaacagtgataattttctagatgaa-attcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
       | |||   || |  | | | ||| |  | | |   | |     ||     |||| ||  |||| | ||  |       |  || ||  |||   |    ||     | |||||||||||  |||||||| || ||||||||||| ||||||||  |||| |||||||| |||||||| |||||||| ||  ||
gtatatctcatttctaatt--ttatttccataattccatcccaggttcatctctcctaaatttgatgttttattagtgggctttgtccactgtagtaacactagtaatatctgtacagGTTTGATGTAAAGATAGCTGCTGCAGTAGCTGAAGAAACAAACTTGCCATTTGTCACTGCAGAAAACAAGTTTGAAGCTCTG

upper sequence: GLYMA02G01930.2 (Glycine max), 3'ss of exon 8
lower sequence: AT5G50950.3 (Arabidopsis thaliana), 3'ss of exon 7
ttattatgaaataataaataccaaacctaccttttaaggctgaagaaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
                      | | || | |||  ||  | |     ||      || | |  |     |||| |  ||     ||| ||| |    ||||||||||  ||||| || || ||||||||||| ||||||||  |||| || ||||| |||||||| |||||||| ||  ||
--------------------gtatatct-cgtttctagttttatatccattccgatttcatcctactggtaacactagta-----ctatatgca---tagGTTTGATGTAAAGATCGCTGCTGCAGTAGCTGAAGAAACAAACTTGCCATTCGTCACCGCAGAAAACAAGTTTGAAGCTCTG

upper sequence: GLYMA02G01930.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 9
-ttattatgaaataataaataccaaacctaccttttaaggctgaagaaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
  |||    |  ||||     |  || ||   || | | |   |   |   || |   ||   |     |  |   |  | | ||| |       ||| ||||||||||  ||||||||   |||||| || |||||||||||| | || || ||||| |||||||| |||||||| ||  ||
agtatgtgcatttaattttctctcaatct-tattatgaagtccatttatccatattagttgttttttagttcatgatagtcaatttttgagcttcatttagGTTTGATGTAAAGATAGCTAGAGCAGTTGCCGAGGAAACAAATTTACCATTCGTCACAGCAGAAAACAAGTTTGAAGCACTG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|151394627|gb|EV264498.1|EV264498
EST:     CTTGCCCAGGGTGGTACAGCTGTAGGGACTGGATTGAATACCAAGAAGGG                         GTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTT
genomic: CTTGCCCAGGGTGGTACAGCTGTAGGGACTGGATTGAATACCAAGAAGGGgtaagtattc ... tgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaatatgtggtttaactaaagataaacagtgataattttctagatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTCACGGCAGAAAATAAGTTTGAGGCCTTG
              aactaaa  putative branch site (score: 2)
           tttaactaaagataaa  TA-rich tract