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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgccaattgcctgtcaatgaagttccattcctttcctttcaccattttttcccaaacttttttgggtccagttttctaacttgacaatactttgtttagttaatgtgtatgccttgcattttagtggaatttacattgccctattttctgtagCTGTATCAAAACAAGTTGTCTACTATAAGGGTCATGAAGTACACAATCTCAATGAATTGGAATACATAAATGGTGAAGTTTGGGCAAATGTTTTACCG

Basic information

species Glycine max
transcript GLYMA09G24450.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G24450.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g01410.1 (Oryza sativa), 3'ss of exon 6
gtttgccaattgcctgtcaatgaagttcc-attcctttcctttcaccattttttcccaaactt---ttttgggtccagttttctaacttgacaatactttgtttagttaatgtgtatgccttgcattttagtggaatttacattgccctattttctgtagCTGTATCAAAACAAGTTGTCTACTATAAGGGTCATGAAGTACACAATCTCAATGAATTGGAATACATAAATGGTGAAGTTTGGGCAAATGTTTTACCG
       ||||      || |||  ||   |||||  |    |||   | ||   |   | ||   || | |   |||    ||  | ||  | ||        |  |  ||| |    ||| ||||||  |  | || |||||      |||  || ||   |    | |     |||  | ||| | | | ||||||| | | |||| |||||| ||||||| ||||| |||||||| ||||||||||| |  | |
-----gtaattattc--cagtgattttgtgattcccattggctcatgttgttcgacttgatttcacttctagactcaggcaacttgcctgggactaaa------aactgttgtttgaaacttccattttgatt-atttgacattct----tttggtgcagTCATGAAGACAGTGACTGTGAAATATCAAGATAATGAAGTCCCCTATCTTAATGAACTGGAATATATAAACGGTGAAGTATGGGCAAATGTCTGGCAG
















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|151393930|gb|EV263801.1|EV263801
EST:     CAGTTCAACATTGTATCAAATGATTCAAACTGATCCTCAGACATTTAAAG                         CTGTATCAAAACAAGTTGTCTACTATAAGGGTCATGAAGTACACAATCTCA
genomic: CAGTTCAACATTGTATCAAATGATTCAAACTGATCCTCAGACATTTAAAGgtttgccaat ... ttttctgtagCTGTATCAAAACAAGTTGTCTACTATAAGGGTCATGAAGTACACAATCTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaatgtgtatgccttgcattttagtggaatttacattgccctattttctgtagCTGTATCAAAACAAGTTGTCTACTATAAGGGTCATGAAGTACACAATCTCAATGAATTGGAATACATAAATGGTGAAGTTTGGGCAAATGTTTTACCG
 agttaat  putative branch site (score: 4)
                                     ttgccctattttct  putative PPT
                             aatttacatt  TA-rich tract