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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATATATGTCATCCCCATGCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaattagtcattgcatcaagaatagaaccccaaggggagaaatataggtgaaattagttgcctttcttttgttcagcatcttatgcactactcttgttggttttgcag

Basic information

species Vitis vinifera
transcript Vv01s0010g03370.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g03370.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA05G27940.1 (Glycine max), 5'ss of exon 6
CATATATGTCATCCCCATGCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaattagtcattgcatcaagaatagaaccccaaggggagaaatataggtgaaattagttgcctttcttttgttcagcatcttatgcactactcttgttggttttgcag
| ||||||||||| || ||||| || |||||||| || || ||||| ||||||||||| || ||||||||| || |||  || | |  |     ||     |||                           |   ||||  |  ||||  |||| || |       || || | |||| ||
CTTATATGTCATCTCCGTGCCACATAGAGTTGATATTATCTGAAAAAGAAGAACCTGTGAAGAAGGAGgtatttgattcatc-tagttttgttgatcctctccc----------------------ccccctttttttcaatgattcattatctaattcctattctttttttggtttgtag

upper sequence: Vv01s0010g03370.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA08G10910.2 (Glycine max), 5'ss of exon 6
CATATATGTCATCCCCATGCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaattagtcattgcatcaagaatagaaccccaaggggagaaatataggtgaaattagttgcctttcttttgttcagcatcttatgcac-tactcttgttggttttgcag
| ||||||||||| || ||||| || ||||| || || || ||||| ||||||||||| || ||||||||| || |||| ||      |   || |     |||   |       |     ||   ||  ||   || || |  || |  |||| || |   | || |||||||||| | ||
CTTATATGTCATCTCCGTGCCACATAGAGTTAATATTATCTGAAAAAGAAGAACCTGTGAAGAAGGAGgtatttgattaatctagttgtgttgattctcttccccccgccccccttccccctg---tttttttttttcctatgattgatgatctaattcttattcttttgttggttt-gtag

upper sequence: Vv01s0010g03370.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT1G67430.1 (Arabidopsis thaliana), 5'ss of exon 6
CATATATGTCATCCCCATGCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaattagtcattgcatc--aagaatagaaccccaaggggagaaatataggtgaaattagttgcctttcttttgttcagcatcttatgcactactcttgttggttttgcag
| || |||||   ||||||||| || |||||||||||||| || |||||||| ||||| ||||| |||||| |  ||   ||||  |||   || |||  |   | |  |  |  || |   |||   | | || | | | | || || |  ||  ||                         
CTTACATGTCCAACCCATGCCACATTGAGTTGATTTTGTCAGAGAAGGAAGAGCCTGTCAAAAAAGAGgtaatatatatttcatctcattggaaaaattcaggactagtgttaataacaacagtgttctcattt-cgtatttgtttttgataattgtag------------------------

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|71873945|gb|DT023000.1|DT023000
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110688512|gb|EE067152.1|EE067152
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGT
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110723473|gb|EE100823.1|EE100823
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|30137537|gb|CB922875.1|CB922875
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|51050520|gb|CO818593.1|CO818593
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|33405080|gb|CF210707.1|CF210707
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAATCTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|352785916|gb|FQ475919.1|FQ475919
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110389474|gb|EC954312.1|EC954312
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110416222|gb|EC982188.1|EC982188
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110410303|gb|EC975983.1|EC975983
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110410646|gb|EC976337.1|EC976337
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|30135012|gb|CB920350.1|CB920350
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGANACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110728251|gb|EE103666.1|EE103666
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|83274721|gb|DV938817.1|DV938817
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAGGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|30132956|gb|CB918295.1|CB918295
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110379867|gb|EC945089.1|EC945089
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110395175|gb|EC960782.1|EC960782
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110408348|gb|EC973983.1|EC973983
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110398542|gb|EC964978.1|EC964978
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAATCTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|32265198|gb|CD716787.1|CD716787
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|32269193|gb|CD718352.1|CD718352
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110364734|gb|EC928205.1|EC928205
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|71873814|gb|DT022869.1|DT022869
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110701444|gb|EE079024.1|EE079024
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|33409449|gb|CF215076.1|CF215076
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAATCTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|32270225|gb|CD719384.1|CD719384
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110699698|gb|EE076922.1|EE076922
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|33409120|gb|CF214747.1|CF214747
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
EST: gi|110426632|gb|EC993047.1|EC993047
EST:     GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAG                         CCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC
genomic: GCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaatt ... ggttttgcagCCTGAAACTCAGTTGGCTACCAGCAAGTCCAAGAAGTCTCATGCAGTGCGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATATATGTCATCCCCATGCCATATCGAGTTGATTTTGTCCGAAAAGGAAGAACCTGTTAAAAAGGAGgtacttaattagtcattgcatcaagaatagaaccccaaggggagaaatataggtgaaattagttgcctttcttttgttcagcatcttatgcactactcttgttggttttgcag

- - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG