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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcattatggttctcatgctatcatttaatattcaattattgttcattttgtatgttttggaggatgcttccttaatcatatctaaatcttaactgcagATAGTTGAAGTTTTGACAGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTTTCTGATATTCTTCATAATAGTA

Basic information

species Glycine max
transcript GLYMA08G34030.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os02g08360.1 (Oryza sativa), 3'ss of exon 15
tttcattatggttctcatgctatcatttaatattcaattattgttcattttgtatgttttggaggatgc--ttccttaatcata-tctaaatcttaactgcagATAGTTGAAGTTTTGACAGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTTTCTGATATTCTTCATAATAGTA
     || |  || |  || | |   ||  |  | ||  |   ||  ||| |||  |     |  |||    | || | |  |  | |   |  ||  | ||||| ||||||||| | |||||||| |||||||| || || || || || ||||| ||  ||||  |||||||||| || ||||||||||||||||| || |
---tcttgttctttttttgttttagattttttataaaacaccctttttttggtaaatcacataacatgagagtactcattagtgctttgccttgtatgttcagATTGTTGAAGTTCTTACAGAATCTTTGACACTCAAGGAGACACCCATCCCAACCAAGGTTGCTCGGCTTATGCTAGTGTCTGATATTCTTCATAACAGCA

upper sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G174785_T02 (Zea mays), 3'ss of exon 14
------tttcattatggttctcatgctatca-tttaatattcaat-tattgttcattttgtatgttttggaggatgcttccttaatcatatctaaatcttaactgcagATAGTTGAAGTTTTGACAGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTTTCTGATATTCTTCATAATAGTA
       ||   | || ||||  || |   | |||  ||||| |  |  |||   |||||||  | |    | ||| ||  | | |    |||     |  | | ||||| ||||| ||| | ||||||||||||||||| || || ||  |||||||||| ||  ||||  |||||||||| || ||||| || |||||||| ||||
aggcaaattttctgtgattctggtgtttagacttttctattccacatgatgtctcttttgtagttctcattgaatgattgttcatt---gtct-----tgcatttcagATTGTTGAGGTTCTTACAGAATCCTTGACACTCAAGGAGACGTCTATTCCAACAAAGGTTGCTCGGCTTATGCTAGTGTCTGACATCCTTCATAACAGTA

upper sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 14
lower sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------tttcattatggttctcatgctatcatttaatattcaatta-------ttgttcattttgtatgttttggaggatgcttccttaatcatatctaaat-cttaact--gcagATAGTTGAAGTTTTGACAGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTTTCTGATATTCTTCATAATAGTA
                                  |||  ||    || ||  |  | ||   || |||  |  |       | ||| ||    ||  | ||          | | || | |||| |   | ||||| |   ||| | |||||||||||||| || ||| |||| || ||||| ||  | |||||||| ||| |||| || || |||||||| |||||||||||||||||||| |
gtacaatatgttctgacttatatatttcagtacatttagttggttttttctagacaccacaaaaaatttgaacagaactactcgttaataaaatagatattcatatgcctcttcctacttatatatgtgtacttaattccacagGTTGTTGAAGTTTTGACGGAGTCCCTGACTCTAAAAGAGACATCAATTCCAACCAAAGTTGCTAGACTCATGCTTGTGTCTGATATTCTTCATAATAGCA

upper sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 13
-------tttcattatggttctcatgctatcattta-atattcaattattgttcattttgtatgttttggaggatgcttccttaatcatatctaaatcttaactgcagATAGTTGAAGTTTTGACAGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTTTCTGATATTCTTCATAATAGTA
        ||  |||   ||||  | | | |    | | |   ||  |       ||||| ||  |||     ||||||   || |  | |||     |  | ||||||||||||| ||| | |||||||| || |||||||||||||| ||||| ||||||||| |||||||||| |||||||| |||||| ||||||| ||||| |
ttaaattattttttagaattctgtttccaactgaaagaaagagaaaaaaaaaatcttttgaatactttaa---atgcttatatagttctctct-----tgcattgcagATAGTTGAGGTTCTCACAGAATCTTTAACACTTAAAGAAACACCTATACCAACTAAAGTTGCAAGGCTCATGCTTGTCTCTGATGTTCTTCACAATAGCA

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|208164117|gb|GD962385.1|GD962385
EST:     TAAAAGAGGCTATGGGATTTTCTTTAGATAATGCCGATGCTGCTGGCGAG                         ATAGTTGAAGTTTTGACAGAATCCTTGACACTTAAAGAAACCCCTATTCCA
genomic: TAAAAGAGGCTATGGGATTTTCTTTAGATAATGCCGATGCTGCTGGCGAGgtagtactgt ... ttaactgcagATAGTTGAAGTTTTGACAGAATCCTTGACACTTAAAGAAACCCCTATTCCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattttgtatgttttggaggatgcttccttaatcatatctaaatcttaactgcagATAGTTGAAGTTTTGACAGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTTTCTGATATTCTTCATAATAGTA
                                           tcttaac  putative branch site (score: 2)
                            ttaatcatatctaaat  TA-rich tract