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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTCATGAGGGGCCAGTTACAGGACGGGCAGCTGATGCTATTGCAGCAGCAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatatgtaagaatttcttcctatgtctgcttttgtatagtttgagttgatgagatgattttgattcttttacttgattctactgcatggctctta...

Basic information

species Glycine max
transcript GLYMA01G29420.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G29420.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0217g00020.t01 (Vitis vinifera), 5'ss of exon 4
TCTTCATGAGGGGCCAGTTACAGGACGGGCAGCTGATGCTATTGCAGCAGCAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatatgtaagaatttcttcctatgtctgcttttgtatagtttgagttgatgagatgattttgattcttttacttgattct--actgcatggctctta
|||||| |  |||||||| |  ||  | |||||||||| | ||||||||||||| || || || ||||| ||| || ||||||||||||||||||| |||||||||   |  || |  ||   | ||| | |   ||  |    | || || |||    | | |  |  | ||||  |  ||  |  | ||  | | | |  
TCTTCAGGGAGGGCCAGTGATGGGTAGAGCAGCTGATGTTCTTGCAGCAGCAAATACTGCTGCTGAAGTTGCTCTGAGGCTTGTAAGGCCAGGAAGAAAGgtaattccgttgaatatcttgaacttatatttttgttcctgagatgtgtgtggatccatttagtaggtgtttttttgtcaatgttgaattgggttgatgt--

upper sequence: GLYMA01G29420.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv06s0004g06870.t01 (Vitis vinifera), 5'ss of exon 5
TCTTCATGAGGGGCCAGTTACAGGACGGGCAGCTGATGCTATTGCAGCAGCAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaatt-ata----tgtaagaatttcttcctatgtctgctt-ttgtatagtttgagttgatgagatgattttgattcttttacttgattctactgcatggctctta
||| || || |||||||| |||||  | |||||||||| |||||||||||||||||| || || ||||| || ||| | ||| | ||||| ||||||||||||||| |||    |||    |  |  |   || | | ||| || || | | |   |  || || |  | | | || | ||||||   |  | |   |   |    
TCTCCAAGATGGGCCAGTGACAGGTAGAGCAGCTGATGTTATTGCAGCAGCAAACACTGCTGCTGAAGTTGCATTGAGACTTCTGAGGCCTGGAAGGAAGgtaattcatagtgctgtgcttaaattatttcatcttttcttgttttacaatatttatgaatcaggtattgtggtttgtcttactta--tgaattagtttatt----
















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|208303870|gb|GE108193.1|GE108193
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193357456|gb|FK319252.1|FK319252
EST:     AGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: AGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193392282|gb|FK360107.1|FK360107
EST:     GAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: GAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208324829|gb|GE124797.1|GE124797
EST:     TTGCGGCTTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: TTGCGGC-TTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193604660|gb|FK555943.1|FK555943
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|151404678|gb|EV274492.1|EV274492
EST:     CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTATAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208116695|gb|GD915411.1|GD915411
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208130535|gb|GD932858.1|GD932858
EST:     GGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: GGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208122119|gb|GD915684.1|GD915684
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193601057|gb|FK551686.1|FK551686
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193703942|gb|FK645190.1|FK645190
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|192326702|gb|FK017329.1|FK017329
EST:     CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAG-TTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193341112|gb|FK307948.1|FK307948
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208316528|gb|GE113630.1|GE113630
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|207815070|gb|GD787786.1|GD787786
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208223900|gb|GE020973.1|GE020973
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAGTTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208232474|gb|GE032255.1|GE032255
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|207761345|gb|GD730958.1|GD730958
EST:     TTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: TTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208179725|gb|GD973644.1|GD973644
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|207679999|gb|GD663179.1|GD663179
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193371282|gb|FK336879.1|FK336879
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208137437|gb|GD937989.1|GD937989
EST:     TGGCCTTGCGGCTTTGTTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTTAAAAGGTTGCTGCTGCGTATGATTGT
genomic: TGGCTTTGCGGC-TTG-TAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193628347|gb|FK576793.1|FK576793
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208177758|gb|GD977403.1|GD977403
EST:     AAACACCGCCGCCGAAGTGGTC-TTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: AAACACCGCCGCCGAAGTGG-CTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193332574|gb|FK301202.1|FK301202
EST:     CAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|207816900|gb|GD788441.1|GD788441
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193473878|gb|FK439735.1|FK439735
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208122942|gb|GD925006.1|GD925006
EST:     TGGCCTTGCGGCTTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: TGGCTTTGCGGC-TTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208197375|gb|GD995362.1|GD995362
EST:     AAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: AAACACCGCCGCCGAAGTGGCTTTGCGGCTTG-TAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|207746058|gb|GD717784.1|GD717784
EST:     CAAACGCCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|208269227|gb|GE066007.1|GE066007
EST:     TAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: TAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
EST: gi|193382255|gb|FK348028.1|FK348028
EST:     CAAACACCGCCGCCGAAGTGGCCTTGCGGCTTGTAAGGCCAGGAAGGAAG                         AACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT
genomic: CAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatat ... ttcctgacagAACAAGGATGTAACTGAAGCAATTCAAAAGGTTGCTGCTGCGTATGATTGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTTCATGAGGGGCCAGTTACAGGACGGGCAGCTGATGCTATTGCAGCAGCAAACACCGCCGCCGAAGTGGCTTTGCGGCTTGTAAGGCCAGGAAGGAAGgtaattatatgtaagaatttcttcctatgtctgcttttgtatagtttgagttgatgagatgattttgattcttttacttgattctactgcatggctctta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA