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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATAGAGAACTGCGTAGCGACCCATCAGAGAAGATCGCGATCTTCTGAAACATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaattctctcatagggatagggatagggatagttgctccaatctgttaccccatacgcattccgcaacttttgaagccccatattgtaatttcc...

Basic information

species Glycine max
transcript GLYMA05G32260.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32260.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv12s0028g01400.t01 (Vitis vinifera), 5'ss of exon 2
AATAGAGAACTGCGTAGCGACCCATCAGAGAAGATCGCGATCTTCTGAAACATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaattctctcatagggatagggatagggatagttgctccaatc-tgttaccccatacgcattccgcaacttttgaagccccatattgtaatttcc--------------------------------------------------
                          |      ||   |||||     |||||||| || ||||| || ||||||||||| |||||||||||||| || |||||     || | |  | |   || |  | |   | |||  |   ||| ||  |    | |    ||    ||  ||| |   |    ||| |   | ||                                                  
--------------------------ATTTTGTATTTGGATCTC----AACATGTCCGGAGAAGAAGAGGAAAACGCCGCGGAGCTCAAAATTGGGGATGgtaa--gggtttttttgtcgatgtatg--ttgttttggttattattatcatgaaattttacaaattttaaataatattttattgcaatgattttgtgtaccattacatgctatttatttatttggtgaattttattttattttttttgcag
















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|7591146|gb|AW706885.1|AW706885
EST:     GGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: GGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|15664606|gb|BI701977.1|BI701977
EST:     CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|209729464|gb|BW651831.1|BW651831
EST:     ATGTCTGGCGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: ATGTCTGG-GGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|192323976|gb|FK015697.1|FK015697
EST:     CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|213604131|gb|DB974229.1|DB974229
EST:     CAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: CAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|9899186|gb|BE608084.1|BE608084
EST:     CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|193330682|gb|FK296174.1|FK296174
EST:     CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|213591496|gb|DB955760.1|DB955760
EST:     CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|120533986|gb|EH262119.1|EH262119
EST:     CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|18718067|gb|BM523023.1|BM523023
EST:     CATGTCTGGGGAAGAGTAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|120534144|gb|EH262277.1|EH262277
EST:     CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|9898920|gb|BE607888.1|BE607888
EST:     CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACG                         AGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
genomic: CATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaat ... tttctcccagAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCTTG
EST: gi|5509324|gb|AI855882.1|AI855882
EST:     GCCGCACGAGCTCAAAATTGGAGACGG                         AGTTTCTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCT
genomic: GCCGCA-GAGCTCAAAATTGGAGAC-Ggtaattaaat ... tttctcccagAGTTT-TTGAAGGCAAAGTGCTTAATGAACTGTGAAGTTGCATTGATTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATAGAGAACTGCGTAGCGACCCATCAGAGAAGATCGCGATCTTCTGAAACATGTCTGGGGAAGAGGAAGAAAACGCCGCAGAGCTCAAAATTGGAGACGgtaattaaattctctcatagggatagggatagggatagttgctccaatctgttaccccatacgcattccgcaacttttgaagccccatattgtaatttcc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA