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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtactgcgtaatcccccccaccctccaaaagaaaaaaaaggtttcagactttcaggggtcattatctaatttgttttgttttccgctctctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGCCTCTCCAGCAGTTACCAAGTCTACACCAGAAGGGAAGAAAACATTGAGG

Basic information

species Glycine max
transcript GLYMA12G35050.2
intron # 2
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|209725924|gb|BW654749.1|BW654749
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAG--AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|192305059|gb|FG994609.1|FG994609
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|16348018|gb|BI973613.1|BI973613
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|213600413|gb|DB970307.1|DB970307
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|209708169|gb|BW673832.1|BW673832
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|10233105|gb|BE802050.1|BE802050
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|14990851|gb|BI316524.1|BI316524
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|19053301|gb|BM731968.1|BM731968
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|10234968|gb|BE803856.1|BE803856
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAG--AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|193394751|gb|FK359932.1|FK359932
EST:     GAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: GAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|208334159|gb|GE130018.1|GE130018
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGTAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|5126824|gb|AI748560.1|AI748560
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|193633607|gb|FK579693.1|FK579693
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAG--AG                         GGGATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|192328685|gb|FK023171.1|FK023171
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|192310122|gb|FK002562.1|FK002562
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|151407754|gb|EV277569.1|EV277569
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|193538501|gb|FK498955.1|FK498955
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAG--AG                         GGGATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|213619715|gb|DB967337.1|DB967337
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|213620068|gb|DB965388.1|DB965388
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|208196422|gb|GD993121.1|GD993121
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCNCTGTGCTGTGAGGGCCGTAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|8404380|gb|BE060014.1|BE060014
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|213610336|gb|DB962950.1|DB962950
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|120530690|gb|EH258823.1|EH258823
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|209711200|gb|BW683815.1|BW683815
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|6666423|gb|AW277941.1|AW277941
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|209710111|gb|BW658887.1|BW658887
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|209704267|gb|BW683495.1|BW683495
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|298195992|gb|HO044383.1|HO044383
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|14259697|gb|BG882605.1|BG882605
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
EST: gi|213593634|gb|DB971656.1|DB971656
EST:     AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAA-G-AG                         GGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC
genomic: AGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaa ... tctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagactttcaggggtcattatctaatttgttttgttttccgctctctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGCCTCTCCAGCAGTTACCAAGTCTACACCAGAAGGGAAGAAAACATTGAGG
                    atctaat  putative branch site (score: 3)
                          tttgttttgttttccg  CT-rich tract
                 attatctaatttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagtactgcgtaatcccccccaccctccaaaagaaaaaaaaggtttcagactttcaggggtcattatctaatttgttttgttttccgctctctatcagagGGAATTCGAACAAAAGCTCTGTGCTGTGAGGGCCGAAACAGTGGCTACAGCCTCTCCAGCAGTTACCAAGTCTACACCAGAAGGGAAGAAAACATTGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- gtactgc
- - - - - - - ccccccc
- - - - - - - - - - -accctcc
- - - - - - - - - - - - - - - - -aaaaaaa