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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaagcttgtagtggtttattatgctgaagaaaatatgtggtttaacttctaaagaaataaatttggataaacaatgataatttcctggatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTTACGGCAGAAAATAAGTTTGAGGCCTTG

Basic information

species Glycine max
transcript GLYMA10G02040.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 8
acaagcttgtagtggtttattatgctgaagaaaatatgtggtttaacttctaaagaaataa-atttggataaacaatgataatttcctggatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTTACGGCAGAAAATAAGTTTGAGGCCTTG
      | | | |  |||   |    |    || |   || |||| ||          |   ||||   |||| |   | |||    |   |    ||||| ||||||||||| ||||| || ||||| |||||||||||||| || || ||||| || ||||| || |||||||| || |||
ttggtttaggattactttgaaacagagtgttaattccatgctttacctaaggcgttcctttcatttatttaaataccta-aatccaatctgtctttttcagATTTGATGCCAAAATAGCTGCTGCAGTGGCTGAGGAAACAAACCTACCCTTTGTGACAGCAGAGAACAAGTTTGAAGCTTTG

upper sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 8
lower sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 9
--acaagcttgtagtggtttattatgctgaagaaaatatgtggtttaacttctaaagaaataaatttggataaacaatgataatttcctggatgaa--------------attcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTTACGGCAGAAAATAAGTTTGAGGCCTTG
  | |      |  |  |||  | | |  ||    ||    |||| | ||     | |  | |  ||  || |       |  |   ||| |  ||               | |||||||||||  |||||||| || ||||||||||| ||||||||  |||| ||||| || |||||||| |||||||| ||  ||
gtatatctcatttctaattttatttccataattccatcccaggttcatctctcctaaatttgatgttttattagtgggctttgtccactgtagtaacactagtaatatctgtacagGTTTGATGTAAAGATAGCTGCTGCAGTAGCTGAAGAAACAAACTTGCCATTTGTCACTGCAGAAAACAAGTTTGAAGCTCTG

upper sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 8
lower sequence: AT5G50950.3 (Arabidopsis thaliana), 3'ss of exon 7
acaagcttgtagtggtttattatgctgaagaaaatatgtggtttaacttctaaagaaataaatttggataaacaatgataatttcctggatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTTACGGCAGAAAATAAGTTTGAGGCCTTG
                         |  |     | | | |||| |  || |     ||    |   |     ||   || |   ||  ||| |    ||||||||||  ||||| || || ||||||||||| ||||||||  |||| || || || |||||||| |||||||| ||  ||
------------------------gtatatctcgtttctagttttatatccattccgatttcatcctactggtaacactagta--ctatatgca---tagGTTTGATGTAAAGATCGCTGCTGCAGTAGCTGAAGAAACAAACTTGCCATTCGTCACCGCAGAAAACAAGTTTGAAGCTCTG

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|207780421|gb|GD750774.1|GD750774
EST:     CTTGCCCAGGGTGGTACAGCTGTAGGGACTGGATTGAATACAAAGAAGGG                         GTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTT
genomic: CTTGCCCAGGGTGGTACAGCTGTAGGGACTGGATTGAATACAAAGAAGGGgtatgtatgc ... tgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttctaaagaaataaatttggataaacaatgataatttcctggatgaaattcagGTTTGATGCCAAGATAGCAGCAGCAGTAGCTGAGGAAACAAATCTGCCTTTTGTTACGGCAGAAAATAAGTTTGAGGCCTTG
  ttctaaa  putative branch site (score: 2)
     taaagaaataaatttg  TA-rich tract