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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAATTCCACTTGCAATGGCTGGTCGGAGACCTGGAGATGCTGAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAAgtaagtattaatttgcttcaaagtgaataattacatgacatgagatttagctcaacttaaggctctcagttttctgcctgaactgaacatttatgatttt...

Basic information

species Glycine max
transcript GLYMA05G36850.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G36850.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 8
AAAATTCCACTTGCAATGGCTGGTCGGAGACCTGGAGATGCTGAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAAgtaagtattaatttgcttcaaagtga-ataattacatg-acatgagatttagctcaa--cttaaggctctcagttttctgcctgaactgaacatttatgatttt
|||||||| || |  ||||| || || |||||||| |||||||| |||||||||||||| ||||  ||||| |||| |||  | || |||||||||||  |||  | | |   | ||| | ||||  ||  |  |    ||||   |||   || ||   |  |  |   || |   ||| ||||  ||  |||  
AAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTTTATGCATCGACAGCCAAAGCAGAAAAAGAGTTAAACTGGAAgtaagtgctaacctacatgctaatgatagaattttatttatttattttttaatgcaaaatttcagatacctatatgattgtc---acttaacaaata-aattaa

upper sequence: GLYMA05G36850.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv02s0025g01560.t01 (Vitis vinifera), 5'ss of exon 8
AAAATTCCACTTGCAATGGCTGGTCGGAGACCTGGAGATGCTGAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAAgtaagtattaatttgcttcaaagtgaataattacatgacatgagatttagctcaa--cttaaggctctcagttttctgcctgaactgaacatttatgatttt------
|||||||| || |  |||| ||| ||||||||||| |||||||| ||||||||||||||||||   ||||| ||||  ||  | || |||||||||||  ||     | | ||    |||||||  |     |    ||||   |||   || ||   |  |  |   |  |   ||||| || | |||||         
AAAATTCCTCTGGTCATGGATGGACGGAGACCTGGTGATGCTGAGATTGTTTATGCATCAACAACCAAAGCAGAAAAGGAGTTGAACTGGAAgtaagtgcta-----cctaaaccctaataattgaaattttttttttttaatgcaaaatttcagatacctatatgattatc---actgagcaataatgatcacataaaa
















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|16995819|gb|BM085191.1|BM085191
EST:     GAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAA                         GACTAAATATAGCATCGATGATATGTGCCGCGATCAATGGAATTGGGCTAG
genomic: GAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAAgtaagtatta ... cgccgtgcagGACTAAATATAGCATCGATGATATGTGCCGCGATCAATGGAATTGGGCTAG
EST: gi|19346907|gb|BM891795.1|BM891795
EST:     GAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAA                         GACTAAATATAGCATCGATGATATGTGCCGCGATCAATGGAATTGGGCTAG
genomic: GAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAAgtaagtatta ... cgccgtgcagGACTAAATATAGCATCGATGATATGTGCCGCGATCAATGGAATTGGGCTAG
EST: gi|298193906|gb|HO040554.1|HO040554
EST:     GAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAA                         GACTAAATATAGCATCGATGATATGTGC
genomic: GAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAAgtaagtatta ... cgccgtgcagGACTAAATATAGCATCGATGATATGTGC
EST: gi|261497131|gb|GT185199.1|GT185199
EST:     GAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAA                         GACTAAATATAGCATCGATGATATGTGCCGCGATCAATGGAATTGGGC
genomic: GAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAAgtaagtatta ... cgccgtgcagGACTAAATATAGCATCGATGATATGTGCCGCGATCAATGGAATTGGGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAATTCCACTTGCAATGGCTGGTCGGAGACCTGGAGATGCTGAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAAgtaagtattaatttgcttcaaagtgaataattacatgacatgagatttagctcaacttaaggctctcagttttctgcctgaactgaacatttatgatttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA