Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCGAACTGTGAGAGTTGAGAAGCGGATAAATGAGATTGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcataagtttgccctctttccgttgaatacagttttcttttgaacatttaagttttaatagctaagaattctatttctttatatgcttacaaacttgatttgacttatccgatcttgatatgtaataatatgcttacaaatctcatgtatattaaatatacccaatgtgctgcag

Basic information

species Glycine max
transcript GLYMA06G08640.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G08640.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv04s0008g03810.t01 (Vitis vinifera), 5'ss of exon 4
GTTCGAACTGTGAGAGTTGAGAAGCGGATAAATGAGATTGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcataagtttgccctctttccgttgaatacagttttcttttgaacatttaagttttaatagctaagaat-tctatttctttatatgcttacaaacttgatttgacttatccgatcttgatatgtaataatatgcttacaaatctcatgtatattaaatatacccaatgtgctgcag
|| || ||||||||||| |||||||| ||||||||||| ||||| ||  | |||| ||||||||| ||||||||||| ||||| ||||||| |        ||||   ||            ||| |||||||  ||||| | | ||  | |      |||| | || ||   ||||  ||| || |    | |   |   |   | |                                                             
GTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTGAACAGGACAAAAGTAGAAAGGAAACCAGATTTAAAAGgtaat-------cttgcaacct------------cagctttctttataacatgttaattgaatttctcttgaatctttaatttggtatagactt-catatcaaactcagcccttttcaac-------------------------------------------------------------
















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|120534483|gb|EH262616.1|EH262616
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|298183696|gb|HO028909.1|HO028909
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAG
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAG
EST: gi|298164673|gb|HO014318.1|HO014318
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|298173543|gb|HO016879.1|HO016879
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|151411303|gb|EV281114.1|EV281114
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|193591319|gb|FK547764.1|FK547764
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|192328317|gb|FK020028.1|FK020028
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|151412239|gb|EV282051.1|EV282051
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGGAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|58016161|gb|CX702903.1|CX702903
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|151394766|gb|EV264637.1|EV264637
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAGCAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|58015274|gb|CX702016.1|CX702016
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|18734019|gb|BM527940.1|BM527940
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|208307232|gb|GE101968.1|GE101968
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|298184733|gb|HO029946.1|HO029946
EST:     CGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|120534643|gb|EH262776.1|EH262776
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAG                         GTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAAC
EST: gi|298168083|gb|HO013346.1|HO013346
EST:     TGTTAACAGGCTAAACAAGACAAAAGTGGAAAG-AAACCTGATTTGAAAG                         GTGAGTGAGAAGCAGTCGGTGCAGCTG
genomic: TGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcata ... tgtgctgcagGTGAGCGAGAAGCAGTCGGTGCAGCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCGAACTGTGAGAGTTGAGAAGCGGATAAATGAGATTGTTAACAGGCTAAACAAGACAAAAGTGGAAAGGAAACCTGATTTGAAAGgtacttcataagtttgccctctttccgttgaatacagttttcttttgaacatttaagttttaatagctaagaattctatttctttatatgcttacaaacttgatttgacttatccgatcttgatatgtaataatatgcttacaaatctcatgtatattaaatatacccaatgtgctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA