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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatatcccattttatttatttagtttaaattttttattgccctcagttaaatgtcttttaagagggagtaaaggtttgtgattttgtggcttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGACCATGGCAAGGCTTTTGGCATCATAAAGCCACATGACCGAGTTGTTGTCT

Basic information

species Glycine max
transcript GLYMA20G33060.1
intron # 15
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|58019459|gb|CX706201.1|CX706201
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|23734603|gb|BU765538.1|BU765538
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|254320985|gb|GR827434.1|GR827434
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|33389653|gb|CA852860.1|CA852860
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|58024592|gb|CX711333.1|CX711333
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|7028356|gb|AW458139.1|AW458139
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTGTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|15816107|gb|BI788382.1|BI788382
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|192296891|gb|FG991917.1|FG991917
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTTGAAGGTTGCTTTAGA
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTT-GAAGGTTGCTTTAGA
EST: gi|57574872|gb|CX547847.1|CX547847
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|209729394|gb|BW663669.1|BW663669
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|21678390|gb|BQ630741.1|BQ630741
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|38193712|gb|CF922918.1|CF922918
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|58021524|gb|CX708265.1|CX708265
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|37995900|gb|CF807489.1|CF807489
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|192324820|gb|FK018796.1|FK018796
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATT
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATT
EST: gi|4313412|gb|AI460531.1|AI460531
EST:     CTATGCTGGCAGAT-CACGACACCCA                         GCTGAGTCCAGNAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGA
genomic: CTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAG-AAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGA
EST: gi|16344795|gb|BI970390.1|BI970390
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|57575922|gb|CX548893.1|CX548893
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|17022140|gb|BM093174.1|BM093174
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|120530840|gb|EH258973.1|EH258973
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|12690010|gb|BG156346.1|BG156346
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
EST: gi|37994787|gb|CF806376.1|CF806376
EST:     CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCA                         GCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC
genomic: CTCTTATTGTGAGAGGTCTTTTTCCTATGCTGGCAGATCCACGACACCCAgtaagaattg ... ttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaaatgtcttttaagagggagtaaaggtttgtgattttgtggcttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGACCATGGCAAGGCTTTTGGCATCATAAAGCCACATGACCGAGTTGTTGTCT
        tcttttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatatcccattttatttatttagtttaaattttttattgccctcagttaaatgtcttttaagagggagtaaaggtttgtgattttgtggcttgagtgcagGCTGAGTCCAGAAGTGGAACAAATGAATCAATTTTGAAGGTTGCTTTAGACCATGGCAAGGCTTTTGGCATCATAAAGCCACATGACCGAGTTGTTGTCT

- - - - - - - - - - - - - - - - - - -tgccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagggag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgtggc