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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATAGACTTAGCATTAGTCGTGAGAAGTATAGACAAACTAGACTAGAGCAGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtctgtagcttttgagtaatgatttttgggaggattttattttctcatcttctctatctcttgtctacag

Basic information

species Glycine max
transcript GLYMA17G00740.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G00740.3 (Glycine max), 5'ss of exon 3
lower sequence: Vv00s0568g00010.t01 (Vitis vinifera), 5'ss of exon 3
GGATAGACTTAGCATTAGTCGTGAGAAGTATAGACAAACTAGACTAGAGCAGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgta-taatgtctgtagcttttga----gtaatg----atttttgggaggattttattt-tctcatcttctctatctcttgtctacag-----
||| |||||||||||    ||||||||||| |||| ||||||||||||||||||||| |||||||| || ||||| || || || |||   || || |||||| || | ||  ||| || |       |||      | || |   || |  |  ||| || ||  |   || | |||| | |||       
GGAGAGACTTAGCATCTCCCGTGAGAAGTACAGACTAACTAGACTAGAGCAGTACAAAAACTATGAGAACATACCACATTCTGGAGAAGGTTCGGAGAAGgtaatattttccctaggttctagtggtataacactgtacttataatagtacatactttctcacacttgtcctttttcttatttacttgttag
















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|193420877|gb|FK385830.1|FK385830
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|298182122|gb|HO026297.1|HO026297
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|209697566|gb|BW660573.1|BW660573
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|213607081|gb|DB966986.1|DB966986
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|192317031|gb|FK007826.1|FK007826
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|213587960|gb|DB957433.1|DB957433
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|209722848|gb|BW682907.1|BW682907
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|151404558|gb|EV274372.1|EV274372
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|192319504|gb|FK009486.1|FK009486
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|192317030|gb|FK007825.1|FK007825
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|254340112|gb|GR858237.1|GR858237
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
EST: gi|209704179|gb|BW664797.1|BW664797
EST:     AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAG                         GAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC
genomic: AGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtc ... ttgtctacagGAATGCACACCAACACATAGAGGAGGAAAGTATTATGATTTCTGGCAAAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGATAGACTTAGCATTAGTCGTGAGAAGTATAGACAAACTAGACTAGAGCAGTACAAGAACTATGAAAATATACCGCAATCAGGCGAACAGTCAGAAAAGgtataatgtctgtagcttttgagtaatgatttttgggaggattttattttctcatcttctctatctcttgtctacag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC