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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttcttttctatcgcgttgttaatttaaagattcgttacctcgagcattaggtttaatttaagggaaaatgttaaattttgttttgggtgtatgcttattgaagGATGGTTCGGTGTGGAGGACCAACAAGTTTATGGATGCTTCTCAATCTCTTACGGCTTCTTCGGCGGATATGCGAATCTGGGAACGTCGACTGCTTTATT

Basic information

species Glycine max
transcript GLYMA04G39990.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39990.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0067g02530.t01 (Vitis vinifera), 3'ss of exon 2
gttttct-tttctatcgcgttgttaatttaaagattcgttacctcgagcattaggtttaatttaagggaaaatgttaaattttgttttgggtgtatgcttattgaagGATGGTTCGGTGTGGAGGACCAACAAGTTTATGGATGCTTCTCAATCTCTTACGGCTTCTTCGGCGGATATGCGAATCTGGGAACGTCGACTGCTTTATT
|| || | |||||  ||  ||| ||| |  |  |    | || ||      | |||  | ||| ||| |      |||  | |    |   | | |  |  ||  |||| ||| |    ||||| ||||||||||||||||||| |||||||| || || || ||||    | ||||||||| | ||||| || ||||| || || |
gtattttgtttctgacgtattggtaact--actaactatcacttcttttggttggtaaagtttgaggca-----ctaagctcttgcct---tttttaatggttttagGAAGGTCCAAATTGGAGAACCAACAAGTTTATGGATGTTTCTCAATTTCCTATGGGTTCTAGACCTGATATGCGAGTTTGGGAGCGCCGACTTCTATACT
















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|15815401|gb|BI787676.1|BI787676
EST:     GGATGATACAAGACATGCTCGGGAATGAATTTTACGTTGGCGCTTATAAG                         GATGGTTCGGTGTGGAGGACCAACAAGTTTATGGATGCTTCTCAATCTCTT
genomic: GGATGATACAAGACATGCTCGGGAATGAATTTTACGTTGGCGCTTATAAGgttttctttt ... cttattgaagGATGGTTCGGTGTGGAGGACCAACAAGTTTATGGATGCTTCTCAATCTCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtttaatttaagggaaaatgttaaattttgttttgggtgtatgcttattgaagGATGGTTCGGTGTGGAGGACCAACAAGTTTATGGATGCTTCTCAATCTCTTACGGCTTCTTCGGCGGATATGCGAATCTGGGAACGTCGACTGCTTTATT
  gtttaat  putative branch site (score: 4)
                aaaatgttaaattttg  TA-rich tract