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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATGCAGAAAATGGAGATGCTGTGTACGAAGGTCAGGAAAAAATGATAGAACTTGGAATAACTGGTCCTGAGGGACATGCTCTTTCACGGCCTGCAGTGgtaaattctcatatttgttcttttgtaaagaatttacagaataatggaatgaaagtactggccacttccagttttgtttcatcatcttcattatcttacc...

Basic information

species Glycine max
transcript GLYMA15G06100.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G06100.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 5
CCATGCAGAAAATGGAGATGCTGTGTACGAAGGTCAGGAAAAAATGATAGAACTTGGAATAACTGGTCCTGAGGGACATGCTCTTTCACGGCCTGCAGTGgtaaattc--tcatatttgttcttttgtaaagaatttacagaataatggaatgaaagtactggcc-acttccagttttgtttcatcat--cttcatt-atcttacc-----------------------------
 ||||| |||||||||||||| || | |||||| ||| ||| |||||| ||||| || || || ||||| ||||| |||||||||||| ||||| | ||||||| ||   |||    | |||  || ||     | ||| |  |  | || |     |  |  || |  ||   | |||  ||   |   |||  || |   |||                              
TCATGCTGAAAATGGAGATGCAGTATTCGAAGGACAGAAAAGAATGATTGAACTGGGCATTACAGGTCCAGAGGGTCATGCTCTTTCAAGGCCTCCTGTGgtaatttgcgtcaagcattttccatttta----ttatactgcctcctagattttttcttttctcctatatctgctcttgcctctgtaaagctttgttgaagctactaaaacaagatccttgtttgacaatgtcag

upper sequence: GLYMA15G06100.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 5
CCATGCAGAAAATGGAGATGCTGTGTACGAAGGTCAGGAAAAAATGATAGAACTTGGAATAACTGGTCCTGAGGGACATGCTCTTTCACGGCCTGCAGTGgtaaattctcatatttgttcttttgtaaagaatttacagaataatggaatgaaagtactggccacttccagttttgtttcatcatcttcattatcttacc----
 ||||| ||||||||||||||||| |  ||||| ||| ||| ||||||||||||||| || |||||||| ||||||||||| |||||| ||||  | ||||||| | || | |  ||| | ||| |      || ||    || ||   |    ||  ||  |   |    ||||   |||| |     ||| |   ||     
ACATGCTGAAAATGGAGATGCTGTATTTGAAGGGCAGAAAAGAATGATAGAACTTGGCATTACTGGTCCAGAGGGACATGCACTTTCAAGGCCACCCGTGgtaattccttaaagatgtccattttttc---tttgaccctgtattgccctctg-gtgttgcacttatagtattttacatcattaaacctatttttgaacttttg
















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|11274766|gb|BF325101.1|BF325101
EST:     AATAACTGGTCCTGAGGGACATGCTCTTTCACGGCCTGCAGTG                         TT-GAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAAC
genomic: AATAACTGGTCCTGAGGGACATGCTCTTTCACGGCCTGCAGTGgtaaattctc ... acctatgtagTTGGAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAAC
EST: gi|19053668|gb|BM732335.1|BM732335
EST:     AACTTGGAATAACTGGTCCTGAGGGACATGCTCTTTCACGGCCTGCAGTG                         TTGGAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAAC
genomic: AACTTGGAATAACTGGTCCTGAGGGACATGCTCTTTCACGGCCTGCAGTGgtaaattctc ... acctatgtagTTGGAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAAC
EST: gi|27445929|gb|CA953052.1|CA953052
EST:     GACATGCTCTTTCACGGCCTGCAGTG                         TTGGAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAAC
genomic: GACATGCTCTTTCACGGCCTGCAGTGgtaaattctc ... acctatgtagTTGGAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAAC
EST: gi|17400710|gb|BM177492.1|BM177492
EST:     AACTTGGAATAACTGGTCCTGAGGGACATGCTCTTTCACGGCCTGCAGTG                         TTGGAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAAC
genomic: AACTTGGAATAACTGGTCCTGAGGGACATGCTCTTTCACGGCCTGCAGTGgtaaattctc ... acctatgtagTTGGAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAAC
EST: gi|193561837|gb|FK516856.1|FK516856
EST:     GACATGCTCTTTCACGGCCTGCAGTG                         TTGGAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAAC
genomic: GACATGCTCTTTCACGGCCTGCAGTGgtaaattctc ... acctatgtagTTGGAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCATGCAGAAAATGGAGATGCTGTGTACGAAGGTCAGGAAAAAATGATAGAACTTGGAATAACTGGTCCTGAGGGACATGCTCTTTCACGGCCTGCAGTGgtaaattctcatatttgttcttttgtaaagaatttacagaataatggaatgaaagtactggccacttccagttttgtttcatcatcttcattatcttacc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG