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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgatttttttatcagtataatgacttttatctttccctgattttccatgaattaagaagaaactgaagaagttagttagttaaactttttttctgtatatttcgcatgaagcatgataatgctgactgtatgaattaatgttctttttatgctccattttaaccacatgattcgaatctcagACATTGCAAGGAGCATTGCTCAGCTGTTCGTACACTGTACTTGACTATGCACAAACCGGATTGATTGCAGCAGTGTTCTTTTTTAAA

Basic information

species Glycine max
transcript GLYMA03G41050.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G41050.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0036g01130.t01 (Vitis vinifera), 3'ss of exon 6
gtatgtgatttttttatcagtataatgacttttatctttccctgattttccatgaattaagaagaaactgaagaagttagttagt--taaactttttttctgtatatttcgcatgaagcatgataatgctgactgtatgaattaatgttctttttatgctccattttaaccacatgattcgaatctcagACATTGCAAGGAGCATTGCTCAGCTGTTCGTACACTGTACTTGACTATGCACAAACCGGATTGATTGCAGCAGTGTTCTTTTTTAAA
                                                                            ||||  ||   |  | || | |    | |  ||  ||| | | ||  |  |    | | | || || ||  || |||               |||| ||  ||   |   ||| |||||||||||||| ||||||||||  | || ||| | ||||||||||||||||| ||  | ||||||||||| ||||| ||||||
------------------------------------------------------------------------agtattagcaagaaatggagttctctatcatgttgttatcat-aggaatagttctaactattatgtggatcaagattgttt--------------gaccaaat--tttacaatccagGCATTGCAAGGAGCACTGCTCAGCTGCACCTATACTATGCTTGACTATGCACAAACTGGGCTAATTGCAGCAGTATTCTTCTTTAAA
















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|11687819|gb|BF595495.1|BF595495
EST:     AGATGCGTAACCGTGAACGTGAGAGGCTTCGTGGGCCTCAATGGTTGAAG                         ACATTGCAAGGAGCATTGCTCAGCTGTTCGTACACTGTACTTGACTATGCA
genomic: AGATGCGTAACCGTGAACGTGAGAGGCTTCGTGGGCCTCAATGGTTGAAGgtatgtgatt ... cgaatctcagACATTGCAAGGAGCATTGCTCAGCTGTTCGTACACTGTACTTGACTATGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatgaattaatgttctttttatgctccattttaaccacatgattcgaatctcagACATTGCAAGGAGCATTGCTCAGCTGTTCGTACACTGTACTTGACTATGCACAAACCGGATTGATTGCAGCAGTGTTCTTTTTTAAA
                             ttttaac  putative branch site (score: 2)
     aattaatgttcttttt  TA-rich tract