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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggagtcagtcttgtgttctctttctgatgtatccttaaaaaaagacagttactcctgttttagccatataatggttaattgtgtgacaaaattattgcagGAGTCCATTAATATGGCTGCAAAAAGTTGGGGTCTAGAGTGCCTTCGATATGAAATAA

Basic information

species Glycine max
transcript GLYMA06G14340.1
intron # 3
splice site 3'
intron type U2

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|207774799|gb|GD747631.1|GD747631
EST:     CTCTTGACAAGACTTTTGAGGAAAGGGACACGCTCAATGAAAAGATTGTG                         GAGTCCATTAATATGGCTGCAAAAAGTTGGGGTCTAGAGTGCCTTCGATAT
genomic: CTCTTGACAAGACTTTTGAGGAAAGGGACACGCTCAATGAAAAGATTGTGgtgagtttag ... attattgcagGAGTCCATTAATATGGCTGCAAAAAGTTGGGGTCTAGAGTGCCTTCGATAT
EST: gi|192328054|gb|FK021800.1|FK021800
EST:     CTCTTGACAAGACTTTTGAGGAAAGGGACACGCTCAATGAAAAGATTGTG                         GAGTCCATTAATATGGCTGCAAAAAGTTGGGGTCTAGAGTGCCTTCGATAT
genomic: CTCTTGACAAGACTTTTGAGGAAAGGGACACGCTCAATGAAAAGATTGTGgtgagtttag ... attattgcagGAGTCCATTAATATGGCTGCAAAAAGTTGGGGTCTAGAGTGCCTTCGATAT
EST: gi|11687700|gb|BF595376.1|BF595376
EST:     CTCTTGACAAGACTTTTGAGGAAAGGGACACGCTCAATGAAAAGATTGTG                         GA-TCCATTA-TATGGCTGGCAAAAAGT-GGGGTCTAGA-TGCCCTTC-AT
genomic: CTCTTGACAAGACTTTTGAGGAAAGGGACACGCTCAATGAAAAGATTGTGgtgagtttag ... attattgcagGAGTCCATTAATATGGCTG-CAAAAAGTTGGGGTCTAGAGTGCC-TTCGAT
EST: gi|209700740|gb|BW670488.1|BW670488
EST:     CTCTTGACAAGACTTTTGAGGAAAGGGACACGCTCAATGAAAAGATTGTG                         GAGTCCATTAATATGGCTGC
genomic: CTCTTGACAAGACTTTTGAGGAAAGGGACACGCTCAATGAAAAGATTGTGgtgagtttag ... attattgcagGAGTCCATTAATATGGCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagttactcctgttttagccatataatggttaattgtgtgacaaaattattgcagGAGTCCATTAATATGGCTGCAAAAAGTTGGGGTCTAGAGTGCCTTCGATATGAAATAA
                           ggttaat  putative branch site (score: 4)
                    atataatggttaatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggagtcagtcttgtgttctctttctgatgtatccttaaaaaaagacagttactcctgttttagccatataatggttaattgtgtgacaaaattattgcagGAGTCCATTAATATGGCTGCAAAAAGTTGGGGTCTAGAGTGCCTTCGATATGAAATAA

- - - - - -tgtgttc
- - - - - - - - - - - tctgatg
- - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtga