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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcataactttgactgacataaggatttttactaagcctcattcaaacatcttcttcgtctttcatttttccttaacctggtgtgttactgtggcactagTGGCAATGACAATGCTTCTGACTTTTCTG

Basic information

species Glycine max
transcript GLYMA12G09000.1
intron # 2
splice site 3'
intron type U12 (go to U12 genes for details)

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|298184800|gb|HO030013.1|HO030013
EST:     CACACTTCAAAAAGTGCCAGTGTCTTTTTCTGTGGATACAAAGTTCTAAC                         TGGCAATGACAATGCTTCTGACTTTTCTG
genomic: CACACTTCAAAAAGTGCCAGTGTCTTTTTCTGTGGATACAAAGTTCTAACgtatccttga ... gtggcactagTGGCAATGACAATGCTTCTGACTTTTCTG
EST: gi|19268763|gb|BM885019.1|BM885019
EST:     CACACTTCAAAAAGTGCCAGTGTCTTTTTCTGTGGATACAAAGTTCTAAC                         TGGCAATGACAATGCTTCTGACTTTTCTG
genomic: CACACTTCAAAAAGTGCCAGTGTCTTTTTCTGTGGATACAAAGTTCTAACgtatccttga ... gtggcactagTGGCAATGACAATGCTTCTGACTTTTCTG
EST: gi|15662220|gb|BI699591.1|BI699591
EST:     CACACTTCAAAAAGTGCCAGTGTCTTTTTCTGTGGATACAAAGTTCTAAC                         TGGCAATGACAATGCTTCTGACTTTTCTG
genomic: CACACTTCAAAAAGTGCCAGTGTCTTTTTCTGTGGATACAAAGTTCTAACgtatccttga ... gtggcactagTGGCAATGACAATGCTTCTGACTTTTCTG
EST: gi|254343634|gb|GR857390.1|GR857390
EST:     CACACTTCAAAAAGTGCCAGTGTCTTTTTCTGTGGATACAAAGTTCTAAC                         TGGCAATGACAATGCTTCTGACTTTTCTG
genomic: CACACTTCAAAAAGTGCCAGTGTCTTTTTCTGTGGATACAAAGTTCTAACgtatccttga ... gtggcactagTGGCAATGACAATGCTTCTGACTTTTCTG
EST: gi|298173787|gb|HO017123.1|HO017123
EST:     CACACTTCAAAAAGTGCCAGTGTCTTTTTCTGTGGATACAAAGTTCTAAC                         TGGCAATGACAATGCTTCTGACTTTTCTG
genomic: CACACTTCAAAAAGTGCCAGTGTCTTTTTCTGTGGATACAAAGTTCTAACgtatccttga ... gtggcactagTGGCAATGACAATGCTTCTGACTTTTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacatcttcttcgtctttcatttttccttaacctggtgtgttactgtggcactagTGGCAATGACAATGCTTCTGACTTTTCTG
                       ttccttaac  putative branch site 
               tttcattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcataactttgactgacataaggatttttactaagcctcattcaaacatcttcttcgtctttcatttttccttaacctggtgtgttactgtggcactagTGGCAATGACAATGCTTCTGACTTTTCTG

tgcataa
- - - - - - actgaca
- - - - - - - - - - - - - - - -ctaagcc
- - - - - - - - - - - - - - - - - - - -cattcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgtgt