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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacgtgtgttgctaataactaactaatgttaaatgaggctagttaaacgactcattctattaatcaccaaataatttgtacgtgtttaatttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAACAGACGGCAGCTGGCAACGTTAATTCCATAAGGGGTTTTGGTGTAATAG

Basic information

species Glycine max
transcript GLYMA09G41440.1
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|19936730|gb|BQ080991.1|BQ080991
EST:     GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAA                         GGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
genomic: GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAAgcaagtcaac ... ttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
EST: gi|192295821|gb|FG990873.1|FG990873
EST:     GCATGGGGGCTTCCCTCCTACGCCTTCATTTCCATGATTGTTTTGTTCAA                         GGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
genomic: GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAAgcaagtcaac ... ttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
EST: gi|15199262|gb|BI423742.1|BI423742
EST:     GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAA                         GGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
genomic: GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAAgcaagtcaac ... ttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
EST: gi|151411350|gb|EV281161.1|EV281161
EST:     GCATGGGGGCTTCCCCCCTACGTCTTCATTTCCATGATTGTTTTGTTCAA                         GGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
genomic: GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAAgcaagtcaac ... ttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
EST: gi|192311047|gb|FK004736.1|FK004736
EST:     GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAA                         GGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
genomic: GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAAgcaagtcaac ... ttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
EST: gi|16346302|gb|BI971897.1|BI971897
EST:     GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAA                         GGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
genomic: GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAAgcaagtcaac ... ttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
EST: gi|192326883|gb|FK019190.1|FK019190
EST:     GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAA                         GGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
genomic: GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAAgcaagtcaac ... ttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
EST: gi|192311048|gb|FK004737.1|FK004737
EST:     GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAA                         GGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
genomic: GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAAgcaagtcaac ... ttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
EST: gi|19935574|gb|BQ080496.1|BQ080496
EST:     GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAA                         GGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA
genomic: GCATGGGGGCTTCCCTCCTACGTCTTCATTTCCATGATTGTTTTGTTCAAgcaagtcaac ... ttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacgactcattctattaatcaccaaataatttgtacgtgtttaatttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAACAGACGGCAGCTGGCAACGTTAATTCCATAAGGGGTTTTGGTGTAATAG
                       aaataatttgtacgtg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cacgtgtgttgctaataactaactaatgttaaatgaggctagttaaacgactcattctattaatcaccaaataatttgtacgtgtttaatttaatttcagGGATGTGATGCATCAGTGCTATTGAATGATACATCAAGTTTCACAGGTGAACAGACGGCAGCTGGCAACGTTAATTCCATAAGGGGTTTTGGTGTAATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - tgttgct
- - - - - - - - - - - - - - - - atgaggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caccaaa