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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattgatagtaatgttcaacttatacatcaatatttttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA

Basic information

species Glycine max
transcript GLYMA05G37800.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os05g44560.1 (Oryza sativa), 3'ss of exon 13
gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattgatagtaatgttcaacttatacatcaatatttttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA
                  | |  | ||| |  ||    ||   | |||   | ||     |||  ||||  ||  ||||  | | |||     |||||        ||  ||  ||  | |||  ||||| ||||||  |||||||||| ||||||||||| | |||||||||||| ||||||||||||||||| || || ||||| || ||
-----------------gtatatttttttacaatggaaatc--tggtataagcttatctgtgtgcaaataaattctaatacttatctt-----tcaat--------ttacagCTGAGGTTTTCTCGGACATTCAACCGCTGATTCGATCAGTTCTTGATGGATTCAATGTTTGTATTTTTGCTTATGGTCAAACTGGTTCAGGAAAAACTTA

upper sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os06g36080.1 (Oryza sativa), 3'ss of exon 11
---------------------gtactgcatttttttttcttttctatt--tcatgattattatt----attagtacttgttttctattgttgaaattgatagta-atgttcaacttatacatcaatatttttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA
                            |||| || | ||||  | ||  | ||  | ||| |        |||||     || |   ||   ||   | |||  |||||||  || || ||  ||   |||||   |||  ||  |||||||||| | ||||||| | ||| |||| ||||||||||| || ||||||||||| ||||| ||||||||||| || || || || |||||
gtaagaataaaagcgacacttaagtgaaatttgttgtgctttagtgttgattatactaattgtccagagaaagtaccgaaattttgcagtgctaacatacagtttatgttca-tttgtatattcat---tttctggctagATGAGGTATTCAAGGAAATTCAACCACTAATTAGATCAGTTCTTGATGGCTATAATGTTTGTATTTTTGCGTATGGTCAAACTGGATCAGGGAAAACATA

upper sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os01g54080.1 (Oryza sativa), 3'ss of exon 13
gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattgatagtaatgttcaac-ttatacatcaatatttttct------ttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA
                          |  ||  |  | |      | | ||  ||          |||||     ||  ||| ||| ||   ||  |   ||| | |      |   ||  ||| | |||   || |  ||||| |||||| |||| ||||||||||| | ||||||||| || ||||| ||||| ||||| || || ||||| |||||
-------------------------gtatatattagtaagagcaggaatttaattaaagaaaaaaaaatttggcatacagttgaacattgctcacaagcttttatttgataactcacagCTGAAGTTTTCTCCGATATCCAACCTTTGATTAGATCAGTTCTTGATGGATTCAATGTTTGCATTTTTGCATATGGACAAACTGGTTCAGGAAAAACATA

upper sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G062034_T01 (Zea mays), 3'ss of exon 4
--------------gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattgatagtaatgttcaacttatacatcaatatttttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA
              | | |  |  | | | | || | || |  ||  | |||  ||| ||||||  |    ||    |||  |  |||  | | ||   | |||   ||  | || ||  || |||      | ||||| || | ||  ||| | ||| |||| ||||||||||| ||||||||||| || ||||| ||||||||||| || || ||||| ||| |
gtgctaatgacattgaaataaaaatatatcttttgtttaatctatt-taattgctataagtactcataaaatagcactgagtt--ata-cattttttgtcatatctttctttcttgtttgttatagATATGGTTTTCAACGATATTCGGCCACTAATTAGATCAGTTCTTGATGGCTACAATGTTTGCATTTTTGCATATGGTCAAACTGGATCAGGAAAAACACA

upper sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
lower sequence: AT5G41310.1 (Arabidopsis thaliana), 3'ss of exon 11
gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattgatagtaatg----ttcaacttatacatcaatatttttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA
                          |||| |  | ||    ||| |  || |||  |||  |  ||||  |||||  ||    |  || | ||  ||   ||| | |   || || |||| | |||   || |||| |||  ||||||||||  |||||||||| |||||||| ||||||||||||||||| || || || || |||||||| ||
-------------------------gttcaagcctcttccacttatt--ttatttcatat-atgaaaatgtatagttttggacttgtaattaattaatatgtatatatgcgtgcagAGGAAGTTTTCTTAGATACTCGACCTATGATTCGATCCATTCTTGATGGCTACAATGTATGTATATTTGCTTATGGCCAGACGGGTTCTGGAAAGACTTA

upper sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattgatagtaatgttcaacttatacatcaatatttttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA
        |||     ||||| |  | | |||     |||| ||||   || |  |||||  |        ||| | || ||||  |  |  |||  | || |  | ||||| |||  | |||   || |||| |||||| ||||||||  |||||||||| || ||||||||||||||||| |||||||| || || || ||||| || ||
-------gtttaaacctctttccc-tcttatg-----tattgttagcgttt-tcctctataat--------ata-tgatattcatatcctgaatc--tgttatcttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA

upper sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv02s0025g03480.t01 (Vitis vinifera), 3'ss of exon 14
-----------------------gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattga--tagtaatgttcaacttatacatcaatat---ttttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA
                        |   || || ||| ||  ||| ||| || | |  |||  ||||     | |  | || |||||   |  ||  |  |||  | | || | ||  |  ||||   || | ||   || |||  ||||    |||||||||||||| ||||||||||| |||||||| |||||||| ||||||||||| ||||||||||| ||||| ||||| || ||
gttatcttcttataatattttatatttggccttgtttctttatttgtatatcctcag-atttctattccacttagcatgcttttgttaggaaagaacttttaacttactacctttatttgtatatacattgtgttatcagAGGAGGTATTTTTAGACACTCAACCATTAATTCGATCTGTACTTGATGGATACAATGTCTGTATATTTGCCTATGGTCAAACTGGCTCTGGAAAAACCTA

upper sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
lower sequence: EFJ19920 (Selaginella moellendorffii), 3'ss of exon 8
gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattgatagtaatgttcaacttatacatcaatatttt-tctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA
                                                            |  | ||  |     ||| ||     | ||  || ||  |  | | |||| ||   || |||||  ||| ||||| |||||||| || || ||||||||||| ||||| || ||||| ||||| ||||||||||| ||||||||||| || ||
-----------------------------------------------------------gtagtaaagcttccgttaaagtc---ttgatgtataaacttgatatgtttgcagAACAAGTATTCCTGGATACTCAGCCATTGATACGGTCAGTTCTTGATGGTTACAACGTGTGTATTTTTGCGTATGGTCAAACAGGCTCGGGAAAAACGTA

upper sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
lower sequence: EFJ12333 (Selaginella moellendorffii), 3'ss of exon 8
gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattgatagtaatgttcaacttatacatcaatatttt-tctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA
                                                            |  | ||  |     ||| ||     | ||  |  ||  |  | | |||| ||   || |||||  ||| ||||| |||||||| || || ||||||||||| ||||| || ||||| ||||| ||||||||||| ||||||||||| || ||
-----------------------------------------------------------gtagtaaagcttccgttaaagtc---ttgatgtagaaacttgctatgtttgcagAACAAGTATTCCTGGATACTCAGCCATTGATACGGTCAGTTCTTGATGGTTACAACGTGTGTATTTTTGCGTATGGTCAAACAGGCTCGGGAAAAACGTA

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|207790473|gb|GD760868.1|GD760868
EST:     CCGCAAGCTTTTTAAATTTAATAAGGTTTTTGGTCAAGCAACAAGTCAAG                         GGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGT
genomic: CCGCAAGCTTTTTAAATTTAATAAGGTTTTTGGTCAAGCAACAAGTCAAGgtactgcatt ... ttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgttgaaattgatagtaatgttcaacttatacatcaatatttttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA
         aattgat  putative branch site (score: 4)
                                        tatttttcttt  putative PPT
                             ttatacatcaatattt  TA-rich tract