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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATTCTTATTGGCTTTACAACGTACCATGGGGCATGTACAAATCATTGATGTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATGgtaacattatatatcaatttcttgctttttcctttttttggcttggtgattctgttgtttcaatgtcatgtgacatattttatgacatgtag

Basic information

species Glycine max
transcript GLYMA07G11310.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G11310.1 (Glycine max), 5'ss of exon 10
lower sequence: AT3G18070.1 (Arabidopsis thaliana), 5'ss of exon 10
TATTCTTATTGGCTTTACAACGTACCATGGGGCATGTACAAATCATTGATGTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATGgtaa-cattatatatcaatttcttgctttttcctttttttggcttggtgattctgttgtttcaatgtcatgtgacatattttatgacatgtag
 ||||  | ||| | ||||| || |||||||| ||||||||| | || ||||||||  ||||||||||||| ||||||||| || |  | |||||||| ||||  || |||| ||   | |    | |      | | | |   || | | | | |  | |  ||                            
CATTCAGAATGGTTATACAATGTCCCATGGGGAATGTACAAAGCTTTAATGTACATTGAGGAACGTTATGGCAACCCAACTATGATTCTCTCCGAAAACGgtattcaatataaatttttgttccacatccaagatctctagagatgttaagtgtataatctttatag--------------------------

upper sequence: GLYMA07G11310.1 (Glycine max), 5'ss of exon 10
lower sequence: AT3G18080.1 (Arabidopsis thaliana), 5'ss of exon 10
TATTCTTATTGGCTTTACAACGTACCATGGGGCATGTACAAATCATTGATGTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATGgtaacatt---atatatcaatttcttgctttttcctttttttggcttggtgattctgttgtttcaatgtcatgtgacata-----ttttatgacatgtag---------------
|| || | |||| | ||||||||||||||||| ||||||||  | |||||||| || ||||||||||| || ||||| ||| || || | || ||||| ||||  |     | | || ||  ||||   |     || |||| | || || ||  |  | |   | | | ||      ||     |||||| | ||||                 
TACTCGTCTTGGTTATACAACGTACCATGGGGAATGTACAAGGCCTTGATGTATATGAAGGAACGTTACGGCAACCCTACTATGATCCTCTCTGAAAACGgtattaaagaaacaaattaaaatcttcaatcaagtttctttttgttttgttatatttctataagattattataaattttagagctttttataa-atgtttgaacatattttatag
















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|10847433|gb|BF070120.1|BF070120
EST:     GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATG                         GCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
genomic: GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATGgtaacattat ... tgacatgtagGCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
EST: gi|151405282|gb|EV275096.1|EV275096
EST:     GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATG                         GCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
genomic: GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATGgtaacattat ... tgacatgtagGCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
EST: gi|21993798|gb|BQ785326.1|BQ785326
EST:     GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATG                         GCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
genomic: GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATGgtaacattat ... tgacatgtagGCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
EST: gi|15813464|gb|BI785739.1|BI785739
EST:     GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATG                         GCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
genomic: GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATGgtaacattat ... tgacatgtagGCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
EST: gi|193480632|gb|FK446394.1|FK446394
EST:     GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATG                         GCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
genomic: GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATGgtaacattat ... tgacatgtagGCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
EST: gi|209698509|gb|BW656422.1|BW656422
EST:     GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATG                         GCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
genomic: GTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATGgtaacattat ... tgacatgtagGCATGGATGATCCGGGTAACGTGACTCTTCCCAAGGGTTTGCATGACACCA
EST: gi|193426808|gb|FK397017.1|FK397017
EST:     ACATAAAGGAACGTTATGGAAACCCCAACTGTAGTTCTTATCCGAAAATG                         GCATGGATGATCCGGGTAACGTGA
genomic: ACATAAAGGAACGTTATGGAAACCC-AACTGT-GTTCTTATCCGAAAATGgtaacattat ... tgacatgtagGCATGGATGATCCGGGTAACGTGA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATTCTTATTGGCTTTACAACGTACCATGGGGCATGTACAAATCATTGATGTACATAAAGGAACGTTATGGAAACCCAACTGTGTTCTTATCCGAAAATGgtaacattatatatcaatttcttgctttttcctttttttggcttggtgattctgttgtttcaatgtcatgtgacatattttatgacatgtag

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