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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgctctcgttttcgaatccgattcagttaaacgtgcttttcttcttcttcttcttcttcttttgagatttaactttttttttcttcgtcttagATTACCTGCAAGAGCGCGCACCAGGAAGCACGTTGTACGGTTTCAAAGGTGGACCTGCTGGCATTATGAAGTGCAAATACGTTGAACTCACTTCTGAATA

Basic information

species Glycine max
transcript GLYMA15G11890.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaacgctctcgttttcgaatccgattcagttaaacgtgcttttcttctt---cttcttcttcttcttttgagatttaactttttttttcttcgtcttagATTACCTGCAAGAGCGCGCACCAGGAAGCACGTTGTACGGTTTCAAAGGTGGACCTGCTGGCATTATGAAGTGCAAATACGTTGAACTCACTTCTGAATA
|||| | | |  ||||    ||  ||   |||     |  |||| || |        | ||     | ||    | |   |||| |||||  ||| |||||||||||||||||||| ||   ||| ||||| || ||||| ||||| ||||| || ||||| || ||||| |||||||| |||||  | | | |||||||
gtaagggtttgatttttacgtcaaatgatgtttttttttttttttttgtagaatagttgctgacattgttccactcttgattttgttttcggcgtgttagATTACCTGCAAGAGCGTGCGAAAGGTAGCACATTTTACGGGTTCAAGGGTGGTCCAGCTGGTATCATGAAATGCAAATATGTTGAGTTGAATGCTGAATA

upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 3'ss of exon 2
gtaacgctctcgttttcgaatccg-attcagttaaacgtgcttttcttcttcttcttcttcttcttttgagatttaactttttttttcttcgtcttagATTACCTGCAAGAGCGCGCACCAGGAAGCACGTTGTACGGTTTCAAAGGTGGACCTGCTGGCATTATGAAGTGCAAATACGTTGAACTCACTTCTGAATA
|| | | ||   |   |  ||  | ||   ||   |  |    |  |  ||  | |     ||| || ||    | | ||||  ||| ||     |||||||  ||||  | |  |    |||||||||  |||| || ||||| ||||| || ||||| || |||||||||||||| |||||||||   ||||||| 
gtgaggatcgattcgacatatttggatcttgtgtgattttgactcttgtttgatgtggaaattcgttggaataatgatttttcgtttgttgtcggtagATTATTTGCAGAATCATGTGAAAGGAAGCACACTGTATGGGTTCAAGGGTGGTCCCGCTGGGATCATGAAGTGCAAATATGTTGAACTCGACTCTGAATT
















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|16347925|gb|BI973520.1|BI973520
EST:     GTCCGGAGGCCAGGCTCCCGGAGGTCACAATGTCATTTCTGGAATATTCG                         ATTACCTGCAAGAGCGCGCACCAGGAAGCACGTTGTACGGTTTCAAAGGTG
genomic: GTCCGGAGGCCAGGCTCCCGGAGGTCACAATGTCATTTCTGGAATATTCGgtaacgctct ... ttcgtcttagATTACCTGCAAGAGCGCGCACCAGGAAGCACGTTGTACGGTTTCAAAGGTG
EST: gi|17021880|gb|BM092914.1|BM092914
EST:     GTCATTTCTGGAATATTCG                         ATTACCTGCAAGAGCGCGCACCAGGAAGCACGTTGTACGGTTTCAAAGGTG
genomic: GTCATTTCTGGAATATTCGgtaacgctct ... ttcgtcttagATTACCTGCAAGAGCGCGCACCAGGAAGCACGTTGTACGGTTTCAAAGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttcttcttcttcttcttcttttgagatttaactttttttttcttcgtcttagATTACCTGCAAGAGCGCGCACCAGGAAGCACGTTGTACGGTTTCAAAGGTGGACCTGCTGGCATTATGAAGTGCAAATACGTTGAACTCACTTCTGAATA
                            atttaac  putative branch site (score: 3)
                             tttaactttttttttc  CT-rich tract
                     ttttgagatttaactt  TA-rich tract