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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgttagattttaaccttgtaatatatacaagaaatctgttccatgcttgctttatcttctctctcctatttatgctaattctgtgattatgggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCAGATCCAAATGCTATTTTTGAGGAGTTAGGAGACCTTAACAGCTTGGTTG

Basic information

species Glycine max
transcript GLYMA04G39140.1
intron # 4
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|58025280|gb|CX712021.1|CX712021
EST:     TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
genomic: TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
EST: gi|208029136|gb|GD830618.1|GD830618
EST:     TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGTCGATGGTGCACTGTGTTCA
genomic: TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
EST: gi|207757945|gb|GD727725.1|GD727725
EST:     TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
genomic: TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
EST: gi|193692759|gb|FK632876.1|FK632876
EST:     TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
genomic: TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
EST: gi|207720169|gb|GD703956.1|GD703956
EST:     TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGTCGATGGTGCACTGTGTTCA
genomic: TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
EST: gi|214005605|gb|DB984613.1|DB984613
EST:     GCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGCCGATAGTGCACTGTGTTCA
genomic: GCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
EST: gi|193683060|gb|FK620994.1|FK620994
EST:     TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
genomic: TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
EST: gi|209712535|gb|BW653704.1|BW653704
EST:     ATTGGCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
genomic: ATTGGCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
EST: gi|214008734|gb|DB989592.1|DB989592
EST:     TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
genomic: TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
EST: gi|19453569|gb|BM954979.1|BM954979
EST:     TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
genomic: TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCA
EST: gi|193540620|gb|FK496510.1|FK496510
EST:     TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAG                         AACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTAC
genomic: TCTTTGAAGATGATGACACATTGGCTGTGAAAGAAAACAACAGAATTGAGgtgtgcaatc ... gggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTT-C


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgctttatcttctctctcctatttatgctaattctgtgattatgggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCAGATCCAAATGCTATTTTTGAGGAGTTAGGAGACCTTAACAGCTTGGTTG
                           tgctaat  putative branch site (score: 2)
                     tatttatgctaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgttagattttaaccttgtaatatatacaagaaatctgttccatgcttgctttatcttctctctcctatttatgctaattctgtgattatgggatgacagAACATTGATGATCCTGATCAGGCAAACAATGCCGATGGTGCACTGTGTTCAGATCCAAATGCTATTTTTGAGGAGTTAGGAGACCTTAACAGCTTGGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - -ccttgta
- - - - - - - - - - - - - acaagaaa
- - - - - - - - - - - - - - - - - -ctgttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgtg