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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTAATTGGCAAAGAGAGTGTACAATGGAAGACATTTTGATGCAATTGAAGAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaatcttatttctgattgttgttacttgttagtctatttataatttcatctttatgagtttattttatctattgctatgtttttctgcaaattt...

Basic information

species Glycine max
transcript GLYMA05G35000.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G35000.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 4
GCTAATTGGCAAAGAGAGTGTACAATGGAAGACATTTTGATGCAATTGAAGAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaatcttatttctgattgttgttacttgtta-gtctatttataatttcatctttatgagtttattttatctatt-gctatgtttttctgcaaattt
|||| |||||| || |||  ||||||||| ||||| ||||  |||||||||||||||||||| ||||| || ||||| ||||| |||||||| ||||||||| ||| ||| || |||||| |  |||  |    |   || |  ||   || || ||   ||   |  |    |  ||   |  | | || |||    |   
GCTACTTGGCAGAGGGAGCATACAATGGAGGACATATTGACTCAATTGAAGAAAGAAATGATGTCTCCCCAGAATCGAAAGCTGGCTCAGCCTCCTGAAGgtttgttaattttgtttctggtgattgacagaaatagtgttttctttctatctcttcaagattgttaaaaaaaaaataaaagggaagattgtctttgtag--
















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|254348770|gb|GR852449.1|GR852449
EST:     GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAG                         GCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
genomic: GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaat ... tgacttttagGCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
EST: gi|209720209|gb|BW674547.1|BW674547
EST:     ATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAG                         GCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
genomic: ATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaat ... tgacttttagGCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
EST: gi|15201955|gb|BI425146.1|BI425146
EST:     GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAG                         GCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
genomic: GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaat ... tgacttttagGCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
EST: gi|254342628|gb|GR858790.1|GR858790
EST:     GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAG                         GCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
genomic: GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaat ... tgacttttagGCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
EST: gi|192319728|gb|FK011866.1|FK011866
EST:     GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAG                         GCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGTTCTGAGATGTTGTG
genomic: GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaat ... tgacttttagGCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
EST: gi|213602828|gb|DB978159.1|DB978159
EST:     AAAATCGGAAGCTAGCTCAGCTACCTGAAG                         GCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCCCTGAGATGTTGTG
genomic: AAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaat ... tgacttttagGCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
EST: gi|208143661|gb|GD943378.1|GD943378
EST:     CACAAAATCGGAAGCTAGCTCAGCCACCTGAAG                         GCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
genomic: CACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaat ... tgacttttagGCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
EST: gi|19934908|gb|BQ079938.1|BQ079938
EST:     GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAG                         GCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
genomic: GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaat ... tgacttttagGCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
EST: gi|21889833|gb|BQ743046.1|BQ743046
EST:     GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAG                         GCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
genomic: GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaat ... tgacttttagGCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
EST: gi|24135406|gb|BU925916.1|BU925916
EST:     GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAG                         GCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG
genomic: GAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaat ... tgacttttagGCAATGAAGATGGCAGGATTGACCAAAAGGGGCTTGCTCTGAGATGTTGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTAATTGGCAAAGAGAGTGTACAATGGAAGACATTTTGATGCAATTGAAGAAAGAAATGATATCTCCACAAAATCGGAAGCTAGCTCAGCCACCTGAAGgtgtgtcaatcttatttctgattgttgttacttgttagtctatttataatttcatctttatgagtttattttatctattgctatgtttttctgcaaattt

- - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG