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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtaacttaatctgtgaggactagcctagaattttaacccaatttatgtgctaacagttgtaatttttcctggttttagGCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTGTCTAGATGGGCTCTAGAATCATACTTAAAAGGTGATGTTGGCAAGGCAT

Basic information

species Glycine max
transcript GLYMA08G05930.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G05930.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G18260.1 (Arabidopsis thaliana), 3'ss of exon 3
-gttagtaacttaatctg-------tgaggactagcctagaatt-ttaacccaatttatgtgctaa---------cagttgtaatttttcctggttttagGCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTGTCTAGATGGGCTCTAGAATCATACTTAAAAGGTGATGTTGGCAAGGCAT
  |||| || ||  | ||       ||  |||    | ||  || || |   ||||| ||   |||         || ||  |     |  |||||  |||| ||| || |||| || ||||| |||||  |||| || ||||||||| | |||||||||||||| ||| | ||||||||||||||||| || ||||| |
tcttaggaattttttttgagcagtttggagacatctccagcgttgttgagagaatttgtggtttaattgcttgttcacttccatcacattttggttgcagGCGACTTCATTTTATAAGCTAGTAGCAGAAAGGGGGCCGTGGAGTTCTCTCTCTAGATGGGCTCTTGAAGCTTACTTAAAAGGTGATGTGGGTAAGGCTT

upper sequence: GLYMA08G05930.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G73570.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------gttagtaacttaatctgtga----ggactagcctagaattttaacccaatttatgtgctaacagttgtaattt---ttcctggttttagGCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTGTCTAGATGGGCTCTAGAATCATACTTAAAAGGTGATGTTGGCAAGGCAT
              |  || ||||  ||||      |  | ||   ||    ||     | ||   || |     ||||| ||    ||||| ||| ||||| ||  |  |||| || ||||| |||||  | || |||||||||||| | |||||||||||||| ||| | ||||| ||||||||||| || ||||| |
ttatttctatttccatcaatttaaggtgtgtttgtagttttgctctgagcactatgaatacttcattgatggattttgtacttcaaattccttgttgtagGCGACAACTTTTTATAAGCTAGTAGCAGAAAGAGGACCATGGAGTTCTCTCTCTAGATGGGCTCTTGAAGCTTACTTGAAAGGTGATGTGGGAAAGGCTT

upper sequence: GLYMA08G05930.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv17s0000g02280.t01 (Vitis vinifera), 3'ss of exon 3
---------------gttagtaacttaatctgtgaggactagcctagaattt-taacccaatttatgt-gctaacagttgt-aatttttcctggttttagGCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTGTCTAGATGGGCTCTAGAATCATACTTAAAAGGTGATGTTGGCAAGGCAT
                ||  |  | || ||  |  | | |  | |   ||   ||| || || ||||| |||     | ||  | || | |||  || |||| |||||| | ||||||||||||||||| ||||| ||||||||||| |||||||||||||| || || |||||| ||||||||||||| || ||||| |
tgttattatttgtttttttttttcatattcattatgaatttccttgagatgcataagcccatctatgtagctgtttatagttgagttctactgcgttcagGCTACTGCATTATACAAACTAGTTGCAGAACGGGGACCATGGAGTTCCTTGTCTAGATGGGCACTGGAGTCATACCTAAAAGGTGATGTGGGGAAGGCGT

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|193437371|gb|FK401320.1|FK401320
EST:     ATACTGGTCTTGGCTTCAAGAAGAATATTCCTTTG                         GCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTG
genomic: ATACTGGTCTTGGCTTCAAGAAGAATATTCCTTTGgttagtaact ... ctggttttagGCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTG
EST: gi|193362964|gb|FK328728.1|FK328728
EST:     CCATACTGGTCTTGGCTTCAAGAAGAATATTCCTTTG                         GCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTG
genomic: CCATACTGGTCTTGGCTTCAAGAAGAATATTCCTTTGgttagtaact ... ctggttttagGCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTG
EST: gi|151404716|gb|EV274530.1|EV274530
EST:     TCGCTAAGATTT-CCATACTGGTCTTGGCTTCAAGAAGAATATTCCTTTG                         GCAACTGCACTTTACAAACTAGTTGCAGAGCG
genomic: TCGCTAAGATTTTCCATACTGGTCTTGGCTTCAAGAAGAATATTCCTTTGgttagtaact ... ctggttttagGCAACTGCACTTTACAAACTAGTTGCAGAGCG
EST: gi|192329383|gb|FK021837.1|FK021837
EST:     TCGCTAAGATTTTCCATACTGGTCTTGGCTTCAAGAAGAATATTCCTTTG                         GCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTG
genomic: TCGCTAAGATTTTCCATACTGGTCTTGGCTTCAAGAAGAATATTCCTTTGgttagtaact ... ctggttttagGCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctagaattttaacccaatttatgtgctaacagttgtaatttttcctggttttagGCAACTGCACTTTACAAACTAGTTGCAGAGCGGGGTCCATGGAGTTCTTTGTCTAGATGGGCTCTAGAATCATACTTAAAAGGTGATGTTGGCAAGGCAT
                        tgctaac  putative branch site (score: 1)
                                       tttttcctggtttt  putative PPT
                                 ttgtaattttt  TA-rich tract