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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTACTCCATATGCAAATCTCTACCATTATGATCTTCCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtaccaatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatacaagaacaaaaatgaat...

Basic information

species Glycine max
transcript GLYMA09G30910.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G30910.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv17s0000g02680.t01 (Vitis vinifera), 5'ss of exon 5
GTATTACTCCATATGCAAATCTCTACCATTATGATCTTCCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtaccaatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatacaagaacaaaaatgaat
| ||||| ||||||||||||||||| || ||||| |||||||| ||||||||| |||  ||||| || |||||||||  |  ||| ||||||||||    |||       | | || | |   | | | |    || ||| | |   | |||   |  ||  ||   | ||  |  |||         
GCATTACCCCATATGCAAATCTCTATCACTATGACCTTCCTTTGGCACTTGAGAAGAAATACAATGGGTTATTGAGTTACAGAGTAGTgtaagtactgcaataacctcgaaaaaatttgtggttttttgtggggatttatctgtg-gtgtattggttgatgaatgagtctaatattacag--------
















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|193371951|gb|FK334594.1|FK334594
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTTCAAGACTTTTGGAGAAT
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTT-CAAGACTTTTGGAGA-T
EST: gi|208137660|gb|GD936364.1|GD936364
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGGTAG
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|208097652|gb|GD891343.1|GD891343
EST:     CCTTTGGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCA-GACTTTTGGAGATAG
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|193573591|gb|FK529763.1|FK529763
EST:     AGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: AGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|208218049|gb|GE017873.1|GE017873
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAA-GATTT-GCAGATTATGCAGAATTTTGTTTC
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTC
EST: gi|207704606|gb|GD685995.1|GD685995
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|208023473|gb|GD821693.1|GD821693
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGAT
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGAT
EST: gi|193619374|gb|FK571242.1|FK571242
EST:     TTTTAGTCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: -TTTAG-CACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|193623175|gb|FK574609.1|FK574609
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|208301988|gb|GE097468.1|GE097468
EST:     CAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: CAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|208241571|gb|GE038231.1|GE038231
EST:     TTGAGTCGCCAAGTTTGTT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATA
genomic: TTGAGTCGCCAAG-TTG-Tgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATA
EST: gi|193718120|gb|FK653838.1|FK653838
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|193482610|gb|FK446561.1|FK446561
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|193694750|gb|FK628662.1|FK628662
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|193544413|gb|FK503438.1|FK503438
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTTCAAGACTTTTGGAGATA
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTT-CAAGACTTTTGGAGATA
EST: gi|193638232|gb|FK585844.1|FK585844
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|193389816|gb|FK353581.1|FK353581
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGA
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGA
EST: gi|193341034|gb|FK305476.1|FK305476
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGTAATTTTGTTTCAAGACTTTTGGAGATA
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAG-AATTTTGTTTCAAGACTTTTGGAGATA
EST: gi|208139389|gb|GD934235.1|GD934235
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|192332517|gb|FK025622.1|FK025622
EST:     CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: CCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
EST: gi|208206830|gb|GE004651.1|GE004651
EST:     TCGCCGAGTTGT                         GAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG
genomic: TCGCCAAGTTGTgtaagtacca ... aattgtacagGAAAGATTTTGCAGATTATGCAGAATTTTGTTTCAAGACTTTTGGAGATAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATTACTCCATATGCAAATCTCTACCATTATGATCTTCCTTTAGCACTTGAGGAGAGGTACAACGGATTATTGAGTCGCCAAGTTGTgtaagtaccaatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatacaagaacaaaaatgaat

- - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacaaaaa