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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACCTTTACAAATCTATCTGATATATGGGCTAAAGAAATTGACTTATACTCAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcattaatgatttggcttgtataattcctctttctaacaaatagtgaggggtaagtctcaattcactaattcagttaaaaatttgcatgggaata...

Basic information

species Glycine max
transcript GLYMA13G09260.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G09260.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv18s0001g15090.t01 (Vitis vinifera), 5'ss of exon 5
AACCTTTACAAATCTATCTGATATATGGGCTAAAGAAATTGACTTATACTCAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgt-cattaatgatttggcttgtataattcctctt-tctaacaaatagtgaggggtaagtctcaattcactaattcagttaaaaatttgcatgggaata
||| ||||||||||||||||| ||||||||||||||||||||| | ||||||||||||||||| |||||||||||||| || || ||||||||||||||||||  |   |||   | |||  |||   ||||  |||  | ||    |    |||    ||     |   | || ||    |  |  |    || | | |  
AACATTTACAAATCTATCTGACATATGGGCTAAAGAAATTGACCTGTACTCAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattttagatacttgcattgagaaatttttctcatttattttaccaagagcatgaaaggaaatggctcttatcagatgcagcacaaacacgagta--
















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|207821738|gb|GD794765.1|GD794765
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|163928959|gb|EH038663.1|EH038663
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|207822874|gb|GD793675.1|GD793675
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|208129341|gb|GD932309.1|GD932309
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|151394671|gb|EV264542.1|EV264542
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|254322261|gb|GR837675.1|GR837675
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|207783131|gb|GD757152.1|GD757152
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGG
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGG
EST: gi|208260817|gb|GE057739.1|GE057739
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGGTAAG                         GAAAGTGAAAG
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAG
EST: gi|208037279|gb|GD836608.1|GD836608
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAGACTTTGCTAGGGAA
EST: gi|208083740|gb|GD881716.1|GD881716
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGG
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGG
EST: gi|193563389|gb|FK520396.1|FK520396
EST:     CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAG                         GAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAG
genomic: CAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcatt ... catatttcagGAAAGTGAAAGGGTTGTCAGCAAAAAGGAAGGAATAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACCTTTACAAATCTATCTGATATATGGGCTAAAGAAATTGACTTATACTCAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgtcattaatgatttggcttgtataattcctctttctaacaaatagtgaggggtaagtctcaattcactaattcagttaaaaatttgcatgggaata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgaggg