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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtgctacggtgctagtattctgctccttaatgataataattataattatgaaaagaaattcttacaagtcaagcggctgtctgggctaaatatctttttcttttcccttttctgtgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGTTTTGGTAATCATTATCCAAAACATGTTCACCATAGAGGTGCGTCTATAC

Basic information

species Glycine max
transcript GLYMA17G00710.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G00710.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0035g02180.t01 (Vitis vinifera), 3'ss of exon 5
gtgggtgctac--ggtgctagtattctgctccttaatgataataattataattatgaaaaga-aattcttacaagtcaagcggctgtctgggctaaatatctttttcttttcccttttctgtgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGTTTTGGTAATCATTATCCAAAACATGTTCACCATAGAGGTGCGTCTATAC
||  | | ||   | | |    |||    |  | |  ||  || | | |  | ||| |   | || | ||    |  || |  |    |    ||||| | ||  | | |      ||||| | |||||||||||||||| || || || ||||| || ||||||||||||| ||||||||| ||||||||||||| |||||| |||||||||||||| ||||| |
gtatgcgatatctgattcctcaattaaagttgtgagggaacatgagtctgctcatgtagtaataaatattgttgg--aaccaacaaggtcacttaaat-ttttcatatctctgaccttctg-gcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGTTTTGGCAATCATTATCCAAGACATGTCCACCATAGAGGTGCATCTATCC
















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|10843842|gb|BF067090.1|BF067090
EST:     GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAG                         ATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT
genomic: GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAGgtgggtgcta ... ttctgtgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT
EST: gi|192293937|gb|FG986146.1|FG986146
EST:     GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAG                         ATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT
genomic: GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAGgtgggtgcta ... ttctgtgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT
EST: gi|192317016|gb|FK010919.1|FK010919
EST:     GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAG                         ATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT
genomic: GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAGgtgggtgcta ... ttctgtgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT
EST: gi|17020837|gb|BM091871.1|BM091871
EST:     GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAG                         ATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT
genomic: GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAGgtgggtgcta ... ttctgtgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT
EST: gi|254343214|gb|GR856918.1|GR856918
EST:     GACCCAATTTCTTCTCAACTGATGTTCTTCGAGACTTTGCAAAGACCCAG                         ATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATGTTGTAGGT
genomic: GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAGgtgggtgcta ... ttctgtgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT
EST: gi|26047244|gb|CA784103.1|CA784103
EST:     GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAG                         ATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT
genomic: GACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAGgtgggtgcta ... ttctgtgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagtcaagcggctgtctgggctaaatatctttttcttttcccttttctgtgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGTTTTGGTAATCATTATCCAAAACATGTTCACCATAGAGGTGCGTCTATAC
                   ggctaaa  putative branch site (score: 3)
                          tatctttttcttttcc  CT-rich tract
                      taaatatctttttctt  TA-rich tract