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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCTGCATGAAGACAATGAGTATGCTCTATACACTGTAACCCTGTTTCACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgttctttaacacactcaaggattatgctacagaaataactttacctcaaatttatactattttgattttttttgttagtggacatagtgcaa...

Basic information

species Vitis vinifera
transcript Vv14s0068g01280.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G128995_T01 (Zea mays), 5'ss of exon 7
GAAGCTGCATGAAGACAATGAGTATGCTCTATACACTGTAACCCTGTTTCACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgttctt----taacacactcaaggattatgctacagaaataactttacctcaaatttatactattt-tgattttttttgttagtggacatagtgcaa
 |||||  ||||||||||||| |||||||| ||||||||||| ||||||      |||| |||||||||||       ||| || || |  || ||||| || || ||    |     |   |   | |    ||||  ||        |   | | | |   || |  |||     ||    |||  |  |     || | || 
AAAGCTCTATGAAGACAATGAATATGCTCTCTACACTGTAACACTGTTTGCTAAGGTTGTTGACAATTTTAAGGTCCGTGCTCGCGAGAAGGGTTTTCAGgtaaggtttccttgagagtcgtatgtttacactttatattaatctggctatccttctttagccttttgttatccactataagctttaatt-tcattttattccag
















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|110364030|gb|EC927670.1|EC927670
EST:     GACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAA                         ATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: GACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgt ... tgtgatacagATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|349827680|gb|FQ422548.1|FQ422548
EST:     ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAA                         ATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgt ... tgtgatacagATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|351024893|gb|FQ433310.1|FQ433310
EST:     ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAA                         ATTCGTGATTTTGGATATAG
genomic: ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgt ... tgtgatacagATTCGTGATTTTGAATATAG
EST: gi|110699022|gb|EE077184.1|EE077184
EST:     ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAA                         ATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgt ... tgtgatacagATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|110688297|gb|EE066689.1|EE066689
EST:     ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAA                         ATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgt ... tgtgatacagATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|351022393|gb|FQ445168.1|FQ445168
EST:     ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAA                         ATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgt ... tgtgatacagATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|351013608|gb|FQ429749.1|FQ429749
EST:     ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAA                         ATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgt ... tgtgatacagATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|71887796|gb|DT036851.1|DT036851
EST:     ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAA                         ATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgt ... tgtgatacagATTCGTGATTTTGAATATAGTTCAGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|110700866|gb|EE077894.1|EE077894
EST:     ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAAGATTTCAA                         ATTCGTGATTTTGAATATAGTTCAAAAGCAC
genomic: ACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgt ... tgtgatacagATTCGTGATTTTGAATATAGTTCAGAAGCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGCTGCATGAAGACAATGAGTATGCTCTATACACTGTAACCCTGTTTCACCGTGTTGCTGACAATTTTAGAACAAATGCACGTGAAAGAGGATTTCAAgtgagtttgttctttaacacactcaaggattatgctacagaaataactttacctcaaatttatactattttgattttttttgttagtggacatagtgcaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaataa