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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccttcatttttattatttgaattggtgctgcaaactttattctgctttcaatgtttttaattctgcaatcattggttaattgtatttttcattttgcagATGGCAAAGACCCAAAAAAACAAGGCTACTGCTCATCATCTGGGCTTGCTGAAG

Basic information

species Glycine max
transcript GLYMA04G39690.1
intron # 1
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|193649786|gb|FK596293.1|FK596293
EST:     CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAG                         ATGGCAAAGACCC
genomic: CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAGgtacttgggt ... cattttgcagATGGCAAAGACCC
EST: gi|19269399|gb|BM885655.1|BM885655
EST:     CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAG                         ATGGCAAAGACCCNNNNNNNCAAGGCTACTGCTCATCATCTGGGCTTGCTG
genomic: CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAGgtacttgggt ... cattttgcagATGGCAAAGACCCAAAAAAACAAGGCTACTGCTCATCATCTGGGCTTGCTG
EST: gi|7041848|gb|AW471742.1|AW471742
EST:     CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAG                         ATGGCAAAGACCCNNNNNNNCAAGGCTACTGCTCATCATCTGGGCTTGCTG
genomic: CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAGgtacttgggt ... cattttgcagATGGCAAAGACCCAAAAAAACAAGGCTACTGCTCATCATCTGGGCTTGCTG
EST: gi|151412834|gb|EV282646.1|EV282646
EST:     CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAG                         ATGGCAAAGACCCNNNNNNNCAAGGCTACTGCTCATCATCTGGGCTTGCTG
genomic: CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAGgtacttgggt ... cattttgcagATGGCAAAGACCCAAAAAAACAAGGCTACTGCTCATCATCTGGGCTTGCTG
EST: gi|254315459|gb|GR825268.1|GR825268
EST:     CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAG                         ATGGCAAAGACCCNNNNNNNCAAGGCTACTGCTCATCATCTGGGCTTGCTG
genomic: CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAGgtacttgggt ... cattttgcagATGGCAAAGACCCAAAAAAACAAGGCTACTGCTCATCATCTGGGCTTGCTG
EST: gi|11413788|gb|BF425799.1|BF425799
EST:     CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAG                         ATGGCAAAGACCCNNNNNNNCAAGGCTACTGCTCATCATCTGGGCTTGCTG
genomic: CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAGgtacttgggt ... cattttgcagATGGCAAAGACCCAAAAAAACAAGGCTACTGCTCATCATCTGGGCTTGCTG
EST: gi|151406659|gb|EV276474.1|EV276474
EST:     CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAG                         ATGGCAAAGACCCNNNNNNNCAAGGCTACTGCTCATCATCTGGGCTTGCTG
genomic: CTTCCAAAATGGCGACGGTGATGCAGAAGATCAAAGATATCGAAGATGAGgtacttgggt ... cattttgcagATGGCAAAGACCCAAAAAAACAAGGCTACTGCTCATCATCTGGGCTTGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttcaatgtttttaattctgcaatcattggttaattgtatttttcattttgcagATGGCAAAGACCCAAAAAAACAAGGCTACTGCTCATCATCTGGGCTTGCTGAAG
                                        tttttcatttt  CT-rich tract
                               ttaattgtatttttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccttcatttttattatttgaattggtgctgcaaactttattctgctttcaatgtttttaattctgcaatcattggttaattgtatttttcattttgcagATGGCAAAGACCCAAAAAAACAAGGCTACTGCTCATCATCTGGGCTTGCTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
tccttca
- - - - - - - - - - - ttggtgc
- - - - - - - - - - - - - - -tgcaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcaatc