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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaaatgctatattgtagctgcgttaggctcttttcatgatggtttatggctgctgacaatgcttggtgcctctttggaaatattgcttag

Basic information

species Glycine max
transcript GLYMA11G12260.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os05g46720.2 (Oryza sativa), 5'ss of exon 6
TCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaaatgctatattgtagctgcgttaggctcttttcatgatggtttatggctgctgacaatgcttggtgcctctttggaaatattgcttag-----------------------------------
  |  |||  |||| ||| || ||||| || |  || || | | || |||||| |||||| || |||||||| ||||| |||||  ||||||||||||||||| || ||  |  |||||| |   |    |||| |  ||   | ||   ||||         |||   ||    ||  | |  |  || |  |||                                    
GTTGCGCCGCATGTATATTATTAATGCCGGCCAAGGCTTCAAGATGTTATGGAGCACTGTAAAATCTTTCCTAGATCCTAAAACTGCTTCAAAGATTCATgtaagtcaa--ttatatattttttttattgtaggattattgagtaatctgttatatacttaatcaagatttttgaccgttatatagttagtagttaacgactttcatgttctattttttttttctcttgaag

upper sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G073571_T02 (Zea mays), 5'ss of exon 7
TCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaa-aatgctatattg-tagctgcgttaggctcttttcatgatggtttatggctgctgacaatgcttggtgcctctttggaaatattgcttag
||| | ||||||||||||| | |||||||| ||||| ||  |||| |||||||||||||| ||||| ||||||||||||||||| ||  | ||||| |||||  ||    | ||   |   | |  | |    ||      ||  |  || || |||||       ||||  |      |  ||    || ||  ||||
TCTATACCAAATGTTTATCGTCAATGCTGGTCCGGGCTTCCGGTTACTATGGAACACTGTGAAGTCCTTCCTTGATCCCAAAACGACCGCCAAGATACATgtgagtttccagtgaggtgcagattacagaaacagaactactttttt-tgcttgatggcattgattaatgtctcagatattctt----atgtt-tttag

upper sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G073571_T03 (Zea mays), 5'ss of exon 6
TCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaa-aatgctatattg-tagctgcgttaggctcttttcatgatggtttatggctgctgacaatgcttggtgcctctttggaaatattgcttag--
||| | ||||||||||||| | |||||||| ||||| ||  |||| |||||||||||||| ||||| ||||||||||||||||| ||  | ||||| |||||  ||    | ||   |   | |  | |    ||      ||  |  || || |||||       ||||  |      |  ||     | | | ||    
TCTATACCAAATGTTTATCGTCAATGCTGGTCCGGGCTTCCGGTTACTATGGAACACTGTGAAGTCCTTCCTTGATCCCAAAACGACCGCCAAGATACATgtgagtttccagtgaggtgcagattacagaaacagaactactttttt-tgcttgatggcattgattaatgtctcagatattcttatgtttttaggttcttg

upper sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G171354_T04 (Zea mays), 5'ss of exon 1
TCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaaatgctatattgtagctgcgttagg-ctcttttcatgatggtttatggctgctgacaatgcttggtgcctctttggaaatattgcttag
||| | ||||||||||||  | |||||||| ||||| ||  || | |||||||||||||| ||||| || |||||||||||||| ||  | ||||| |||||| ||     | |  |   | |   |||  ||  || ||||| ||||     || |||      ||||  |   |  |  ||    || ||  ||||
TCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATACATgtaagtt----tccactgaggcacaagcgacagaacttttttcttgataac--attgct-----taatgtctaaggtattctt----atgtt-tttag

upper sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 6
lower sequence: AT2G21520.1 (Arabidopsis thaliana), 5'ss of exon 5
TCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaaatgctatattgtagctgcgtt---aggctcttttcatgatggtttatggctgctgacaatgcttggtgcctctttggaaatattgcttag
||||  |||||||||||| || ||||| || || ||||||||| | || |||||||||||||||   || ||||| || || ||| || | || ||||||||||| | | || |||  || || ||   ||   | |   | |   ||||  | ||    |     ||||      |      |||   || | |     
TCTCCACCAAATGTTTATTATCAATGCAGGGCCTGGATTTAGGCTACTCTGGAACACTGTCAAGAGCTTTCTTGACCCTAAGACATCTGCTAAAATTCATgtatg-agagat-ctaagttatatctctatttaaaagtcttgtctttgattatatagaatt-----caatatggactattctattgtttatgtag-----

upper sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G39170.2 (Arabidopsis thaliana), 5'ss of exon 2
TCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaaatgctatattgtagctgcgttaggctcttttcatgatggtttatggctgctga-caatgcttgg--tgcctctttggaaatattgcttag---------
 |||  ||||||||||||||| ||||| || || |||||  |  |||| |||| ||||||||||  ||| || || |||||||| ||||| ||||||||||||||| || |     | |||    |   || |   || |   | |||| ||        | | | |  | ||   | | || |||    |    |||           
CCTCCACCAAATGTTTATCATCAATGCAGGGCCCGGATTCCGTCTGCTTTGGAGCACTGTCAAGAGTTTTCTAGACCCCAAAACGACTTCTAAGATTCATgtatgttaatacatgtttttgct-ttttatttgtacctctagttaatggcttcccttaattaaactactcctgagattcatcattgactgttcaacttttttaatatag

upper sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 7
TCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaaatgctatattgtagctgcgttaggctctt---ttcatgatggttt--atggctgctgacaatgcttggtgcctc---tttggaaatattgcttag
|||||||||||||||||| || |||||||| || || |||||| |||| ||||||||||| ||| |||| || ||||||||||||||||| |||||||||||  || |||||| | |  |     |    |    || |   ||| |   |  ||  |    |||||  |   ||| ||  ||    ||||||| |  | || ||
TCTCTGCCAAATGTTTATTATCAATGCTGGTCCTGGCTTTAGGCTGCTCTGGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTCATgtgcgtgaaaatgtttttcttctattattcttacttcataaattcgtagagccttcaaaatatgctg-tataactttgtctctggggtttggaatttctcctcag

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|193720487|gb|FK657395.1|FK657395
EST:     GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCAT                         GTTCTCGGAAACAAGTACCAAAGCAAATTGCTTGAAATAATTGATGCCAG
genomic: GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaa ... tattgcttagGTTCTCGGAAACAAGTACCAAAGCAAATTGCTTGAAATAATTGATGCCAG
EST: gi|193511296|gb|FK470371.1|FK470371
EST:     GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCAT                         GTTCTCGGAAACAAAGTACCAAAGCAAATTGCTTGAAATAATTGATGCCAG
genomic: GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaa ... tattgcttagGTTCTCGGAAACAA-GTACCAAAGCAAATTGCTTGAAATAATTGATGCCAG
EST: gi|18040573|gb|BM308867.1|BM308867
EST:     GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCAT                         GTTCTCGGAAACAAGTACCAAAGCAAATTGCTTGAAATAATTGATGCCAG
genomic: GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaa ... tattgcttagGTTCTCGGAAACAAGTACCAAAGCAAATTGCTTGAAATAATTGATGCCAG
EST: gi|208266803|gb|GE061918.1|GE061918
EST:     GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCAT                         GTTCTCGGAAACAAGTACCAAAGCAAATTGCTTGAAATAATTGATGCCAG
genomic: GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaa ... tattgcttagGTTCTCGGAAACAAGTACCAAAGCAAATTGCTTGAAATAATTGATGCCAG
EST: gi|193404447|gb|FK365356.1|FK365356
EST:     GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCAT                         GTTCTCGGAAACAAGTACCAAAGCAAA
genomic: GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaa ... tattgcttagGTTCTCGGAAACAAGTACCAAAGCAAA
EST: gi|15813836|gb|BI786111.1|BI786111
EST:     GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCAT                         GTTCTCGGAAACAAGTACCAAAGCAAATTGCTTGAAATAATTGATGCCAG
genomic: GGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTCATgtatgtaaaa ... tattgcttagGTTCTCGGAAACAAGTACCAAAGCAAATTGCTTGAAATAATTGATGCCAG