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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGATGTTCATATCATCACTGCTTAGGTTCAACTTTTATGCCCAAGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggtttttcatctcttcttgtaaaagatttcttctttcctaagtagcaatccatttgaagtgaaacaatataatgtttttgtaagatttcatgctttaacttgtgaatgcttatatgttctgatgtatgattttttatgctcccttttactcaattag

Basic information

species Vitis vinifera
transcript Vv01s0026g02490.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0026g02490.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA01G05750.1 (Glycine max), 5'ss of exon 6
AGAGATGTTCATATCATCACTG---CTTAGGTTCAACTTTTATGCCCAAGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggt-ttttcatctcttcttgtaaaagatttcttct-ttcctaagtagcaatccatttgaagtgaaacaatataatgtttttgtaagatttcatgctttaacttgtgaatgcttatatgttctgatgtatgattttttatgctcccttttactcaattag
|   |||||| ||||| |||||   | |||| |||||||| || || |||||||| || || |||||||| ||||||||||||||||| |||||||||||  |  |  | |  |||  | |  |     |||| |  | ||       ||  || |||| ||      | | |||| |  | |  |   ||   ||                                                                  
AATCATGTTCCTATCAGCACTGTGACATAGGATCAACTTTCATACCAAAGCTTCAGGGGAAATTTTTGGCCACAGAAAATTTCTTTTACACATCAAAGgttcttttactgttgtctagtataattgtgtatttttgttattgtcttaaagggatgcattggagaatggaaattatagtaatgtgctgtaatcctatta----------------------------------------------------------------

upper sequence: Vv01s0026g02490.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA02G11980.1 (Glycine max), 5'ss of exon 6
AGAGATGTTCATATCATCACTG---CTTAGGTTCAACTTTTATGCCCAAGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggtttttcatctcttcttgtaaaagatttcttctttcctaa-gtagcaatccatttgaagtgaaacaatataatgtttttgtaagatttcatgctttaacttgtgaatgcttatatgttctgatgtatgattttttatgctcccttttactcaattag
|   |||||| ||||| || ||   | |||| |||||||| || || |||||||| || || |||||||| || |||||||||||||| |||||||||||  |  |||||   ||     | |      |||  | ||  |||   ||    | |||||    |       || |  | |    |      |    ||                                                               
AATCATGTTCCTATCAGCATTGTGACATAGGATCAACTTTCATACCAAAGCTTCAGGGGAAATTTTTGGCCACGGAAAATTTCTTTTACACATCAAAGgttctcttttttatgcttaatatatgcttattttactgttgtctagtataattgttcatttttgttattgtcttaaagggatgcattggagaatggaact---------------------------------------------------------------
















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|71860764|gb|DT009819.1|DT009819
EST:     AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAG                         TTCTTCGGGTTGGGTTCAAGGGCATTTCTC
genomic: AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggttt ... actcaattagTTCTTCGGGTTGGGTTCACGGGCATTTCTC
EST: gi|110356657|gb|EC919644.1|EC919644
EST:     AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAG                         TTCTTCGGGTTGGGTTCAAGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
genomic: AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggttt ... actcaattagTTCTTCGGGTTGGGTTCACGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
EST: gi|30320456|gb|CD003718.1|CD003718
EST:     AGCTTCAAGGAAAGTTTNTGGCAACAGAAAATTTCTTTTATACATCAAAG                         TTCTTCGGGTTGGGTTCACGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
genomic: AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggttt ... actcaattagTTCTTCGGGTTGGGTTCACGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
EST: gi|110703130|gb|EE079707.1|EE079707
EST:     AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAG                         TTCTTCGGGTTGGGTTCACGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
genomic: AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggttt ... actcaattagTTCTTCGGGTTGGGTTCACGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
EST: gi|110359018|gb|EC919806.1|EC919806
EST:     AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAG                         TTCTTCGGGTTGGGTTCAAGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
genomic: AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggttt ... actcaattagTTCTTCGGGTTGGGTTCACGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
EST: gi|110383305|gb|EC947670.1|EC947670
EST:     AAATTTCTTTTATACATCAAAG                         TTCTTCGGGTTGGGTTCAAGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
genomic: AAATTTCTTTTATACATCAAAGgtattggttt ... actcaattagTTCTTCGGGTTGGGTTCACGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
EST: gi|110357251|gb|EC920660.1|EC920660
EST:     AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAG                         TTCTTCGGGTTGGGTTCAAGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
genomic: AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggttt ... actcaattagTTCTTCGGGTTGGGTTCACGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
EST: gi|110383715|gb|EC948106.1|EC948106
EST:     AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAG                         TTCTTCAGGTTGGGTTCAAGGGCATTTCTCTCTGATCTGACGGTGGCTGGA
genomic: AGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggttt ... actcaattagTTCTTCGGGTTGGGTTCACGGGCATTTCTCTCTGATCTGACGGTGGCTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGATGTTCATATCATCACTGCTTAGGTTCAACTTTTATGCCCAAGCTTCAAGGAAAGTTTTTGGCAACAGAAAATTTCTTTTATACATCAAAGgtattggtttttcatctcttcttgtaaaagatttcttctttcctaagtagcaatccatttgaagtgaaacaatataatgtttttgtaagatttcatgctttaacttgtgaatgcttatatgttctgatgtatgattttttatgctcccttttactcaattag

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA