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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagttgtttgtactaatattagaacaagaatattttgtaactactctgaatttgtgtttaataacacaaattcatctaatatactgacacatctcacataagcctaaaactattttgctgatatctgatcttcatgttccattaacatggttccctacttgcttcttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT

Basic information

species Glycine max
transcript GLYMA13G18470.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G18470.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G416069_T01 (Zea mays), 3'ss of exon 9
gtagttgtttgtactaatattagaacaagaatattttgtaactactctgaatttgtgtttaataacacaaattcatctaatatactgacacatctcacataagcctaaaactattttgctgatatctgatcttcatgttccattaacatggttccctacttgcttcttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT
                                                                    |||    | | |||    || | || | | |||   ||  |  | ||   ||  |  || | |||     || || ||     ||      ||  |     |||||||| || ||| ||||| ||||| |||||||||||||| ||||||||  ||||||| || ||||| ||||||||||| || |||||  | |||||||| |||
------------------------------------------------------------------gtaaagcactgttataggg-gaaatatat-atatatttctgca--tgttcacctcttgcctcaccttgtgcctcaatcaaatcacttaaaagttttgtggcaatttcagTTTTAGGCCATCACCGTTCTTCATATTGGACGAAGTAGATGCTGCTCTGGACAATTTAAATGTGGCCAAGGTTGCCGGGTTTATCAGATCAAAATCATGT

upper sequence: GLYMA13G18470.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G416069_T02 (Zea mays), 3'ss of exon 8
gtagttgtttgtactaatattagaacaagaatattttgtaactactctgaatttgtgtttaataacacaaattcatctaatatactgacacatctcacataagcctaaaactattttgctgatatctgatcttcatgttccattaacatggttccctacttgcttcttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT
                                                                         || ||  ||||  |  |      | |||   ||  |  | ||   ||  |  || | |||     || || ||     ||      ||  |     |||||||| || ||| ||||| ||||| |||||||||||||| ||||||||  ||||||| || ||||| ||||||||||| || |||||  | |||||||| |||
------------------------------------------------------------------------gca-ctgttataggggaaatatatatatatttctgca--tgttcacctcttgcctcaccttgtgcctcaatcaaatcacttaaaagttttgtggcaatttcagTTTTAGGCCATCACCGTTCTTCATATTGGACGAAGTAGATGCTGCTCTGGACAATTTAAATGTGGCCAAGGTTGCCGGGTTTATCAGATCAAAATCATGT

upper sequence: GLYMA13G18470.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv07s0005g03440.t01 (Vitis vinifera), 3'ss of exon 11
gtagttgtttgtactaatattagaacaagaatattttgtaactactctgaatttgtgtttaataacacaaattcatctaatatactgacacatctcacataagcctaaaactattttgctgatatctgatcttc--atgttccattaacatggttccctacttgcttcttg-----tttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT
                                                                                |||| |    | | |  | | |    || | |  | |  |||| |   |   |   ||       ||| | | ||      ||  | | ||     ||||||||||| |||||| || || ||||||||||| ||||| |||||||||||||||||  |||||||||| ||||||||||| || || || |||||||| |||
--------------------------------------------------------------------------------tatatt--tccttttgccttcaaaaaaagattgctcttttgatctgcaaaagttgaataactggctaataggattattatttttatccatgggtggtttcagTTATAGGCCTTCTCCTTTTTTTATATTGGATGAAGTCGATGCTGCATTGGACAATCTGAATGTTGCTAAGGTTGCTGGATTCATCCGATCAAAATCATGT

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|9565678|gb|BE475187.1|BE475187
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|10231191|gb|BE800007.1|BE800007
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|6726074|gb|AW310473.1|AW310473
EST:     GGTGGGNAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|10237487|gb|BE806375.1|BE806375
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|6502274|gb|AW203647.1|AW203647
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|16343490|gb|BI969085.1|BI969085
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|31471677|gb|CD413705.1|CD413705
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|13562462|gb|BG550682.1|BG550682
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|31311145|gb|CD396348.1|CD396348
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|13252606|gb|BG363509.1|BG363509
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatatctgatcttcatgttccattaacatggttccctacttgcttcttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT
                    cattaac  putative branch site (score: 2)
                               ttccctacttgcttct  putative PPT
                     attaacat  TA-rich tract