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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGACCCGGATTTCATTGCTGCCAACCAAGGAGACCGTGCCACTAACGTAATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaaccataatctaattatactagctagcaatagcaccttactgatcagtttgaaactcatagaatatatgttcccttatgaaattaaatttag

Basic information

species Glycine max
transcript GLYMA08G14670.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G14670.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 5'ss of exon 4
ATGACCCGGATTTCATTGCTGCCAACCAAGGAGACCGTGCCACTAACGTAATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaaccataatctaattatactagctagcaatagcaccttactgatcagtttgaaactcatagaatatatgttcccttatgaaattaaatttag
||||||| ||||||||||||||||||||| |    |||||||  ||||| ||||  ||||| |||||||| || || || || ||||| ||||| |||| ||||    || | | |  |  ||| ||  |  | |   |  |    |  |     | |     ||  |   | |||||    |||               
ATGACCCTGATTTCATTGCTGCCAACCAATGCTCTCGTGCCAACAACGTCATCAAAGGCACCAAGAAAGAGCAGGTCCAGCAGATCATTAAAGATATTAGgtagtcgtaatcttcaatttcttaaacatga-atcttaaaaatggaatgggcttttcttcttttctgattttgtatgtatgattag--------------
















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|22523311|gb|BU082122.1|BU082122
EST:     ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAA                         GGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
genomic: ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
EST: gi|31561688|gb|CD487526.1|CD487526
EST:     ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAA                         GGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
genomic: ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
EST: gi|14011639|gb|BG726561.1|BG726561
EST:     ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAA                         GGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
genomic: ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
EST: gi|5678158|gb|AI939288.1|AI939288
EST:     AGAACAAGTTCAACAAATCATCAAAGACATTAA                         GGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
genomic: AGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
EST: gi|22524419|gb|BU083230.1|BU083230
EST:     ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAA                         GGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
genomic: ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
EST: gi|208276855|gb|GE073400.1|GE073400
EST:     ATCAGGGGCACAAAGAAAGA-CAAGTTCAACAAATCATCAAAGACATTAA                         GGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGT
genomic: ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGT
EST: gi|120492592|gb|EH220759.1|EH220759
EST:     ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAA                         GGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
genomic: ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
EST: gi|9901531|gb|BE610499.1|BE610499
EST:     ATCATGGGCACAAAGAAAGAACAAGTTCAACAAATCATCACAGACATTAA                         GGAGTTCAAAGAAAGCACTAATGTTGACAAGGTGGTTGTCCTGTGGACAGC
genomic: ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
EST: gi|15284727|gb|BI468618.1|BI468618
EST:     ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAA                         GGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
genomic: ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
EST: gi|120492384|gb|EH220551.1|EH220551
EST:     ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAA                         GGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
genomic: ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
EST: gi|15203059|gb|BI425827.1|BI425827
EST:     ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAA                         GGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC
genomic: ATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaa ... ttaaatttagGGAGTTCAAAGAAAGCACTAAGGTTGACAAGGTGGTTGTCCTGTGGACAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGACCCGGATTTCATTGCTGCCAACCAAGGAGACCGTGCCACTAACGTAATCAGGGGCACAAAGAAAGAACAAGTTCAACAAATCATCAAAGACATTAAgtaggtcgaaccataatctaattatactagctagcaatagcaccttactgatcagtttgaaactcatagaatatatgttcccttatgaaattaaatttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC