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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCATCATAAGTTTATTGTCAAAGAGGCTGGCTGATGGGGAAGCTAAAGGAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattgatttgatacccacctaatgtccttatattaattagcatatgtgcttgtagttgactgtgatttttctagagactaactaaccacacaagt...

Basic information

species Glycine max
transcript GLYMA03G33390.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G33390.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv13s0067g03360.t01 (Vitis vinifera), 5'ss of exon 2
AATCATCATAAGTTTATTGTCAAAGAGGCTGGCTGATGGGGAAGCTAAAGGAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattgatttgatacccacctaatgtccttatattaattagcatatgtgct-tgtagttgactgtgatttttctagagacta-actaaccacacaagt
||| || |||| ||| ||||| ||| | || |  | ||| ||| | || || ||| | |||||||||||||||||||| || ||||||||||  || |||||||| |    |||||||   |    |   | | |  ||   |  | ||||   | |||   | | |       | |||    ||| | ||   | |  || 
AATTATAATAAATTTGTTGTCCAAGCGTCTTGAAGCTGGAGAATCCAAGGGTGAAACAGGATTTATTCTTGATGGTTTCCCTCGAACAATAAGACAGGCGgtgagcacatctttgataattataacaaaacatgaatttggctcac-tatgaattatgtttattattaaatagatgctaagagctacagtaggaaaagcag-
















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|16345633|gb|BI971228.1|BI971228
EST:     GATGGTTTTCCACGAACAATAAAGCAAGCG                         GAAATATTGGAAGGGGNNNNTGACATTGATCTGGTGGTCAANCTGAANNNN
genomic: GATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
EST: gi|16345511|gb|BI971106.1|BI971106
EST:     GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCG                         GAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
genomic: GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
EST: gi|6914606|gb|AW396136.1|AW396136
EST:     GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCG                         GAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
genomic: GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
EST: gi|10252826|gb|BE820592.1|BE820592
EST:     GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCG                         GAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
genomic: GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
EST: gi|298173011|gb|HO020010.1|HO020010
EST:     GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCG                         GAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
genomic: GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
EST: gi|254324726|gb|GR834151.1|GR834151
EST:     GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCG                         GAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
genomic: GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
EST: gi|120530929|gb|EH259062.1|EH259062
EST:     GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCG                         GAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
genomic: GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
EST: gi|209697267|gb|BW675478.1|BW675478
EST:     GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCG                         GAAATATTGGAAGGGGTAACTGACATTGACCTGATGGTCAATCTGAAGCTC
genomic: GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
EST: gi|15663261|gb|BI700632.1|BI700632
EST:     GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCG                         GAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
genomic: GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
EST: gi|8285320|gb|BE022879.1|BE022879
EST:     GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAACAAGCG                         GAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTGAATCTGAAGCTC
genomic: GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
EST: gi|254315931|gb|GR825740.1|GR825740
EST:     GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCG                         GAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC
genomic: GAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattg ... gtgttctcagGAAATATTGGAAGGGGTAACTGACATTGACCTGGTGGTCAATCTGAAGCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATCATCATAAGTTTATTGTCAAAGAGGCTGGCTGATGGGGAAGCTAAAGGAGAATCGGGATTTATTCTTGATGGTTTTCCACGAACAATAAAGCAAGCGgtgagtattgatttgatacccacctaatgtccttatattaattagcatatgtgcttgtagttgactgtgatttttctagagactaactaaccacacaagt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG