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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagttactttgttaaattctagggtttttattgatgatctctagggttttctctgattggttgttaatcggagtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAGAGGCGTTGGAACTGTGAAGTTCTTGAAGCACAAAGGGTCGGGCAAAGTT

Basic information

species Vitis vinifera
transcript Vv08s0217g00030.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0217g00030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G58590.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------------------gtacagttacttt--gttaaatt-----ctagggtttttattgatgat--ctctagggttttctctgattggt-tgttaatcggag-------tgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAGAGGCGTTGGAACTGTGAAGTTCTTGAAGCACAAAGGGTCGGGCAAAGTT
                            ||    || | |   |||||| |      | |  |||  || || |||   | | || ||||   |    | | | ||  || | |       | || ||||||| | ||| | |||||||||||||| |||||||| |||||||| || ||||| | ||||||||||||||| |||||||| || |   | || ||||||
gtatgttactcgttccgttaatattctagtttccttgcctctggttaaagtgagtgttggattttcgatagaagatgagtgtcggatttttgatagaagatgtattcttctgggtttatgattttgtagGAAATCGAAGATGTATCGATTCGATAAAGAAGGGAACCAATGGAAGGAGAGAGGAGCTGGAACTGTGAAGTTATTGAAGCATAAGGAAACTGGAAAAGTT

upper sequence: Vv08s0217g00030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G07140.1 (Arabidopsis thaliana), 3'ss of exon 1
------------------------gtacagttactttg--ttaaattctagggtttttattga-----tgatctctagggttt----tctctgattggttgttaatcggagtgtttta-gGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAGAGGCGTTGGAACTGTGAAGTTCTTGAAGCACAAAGGGTCGGGCAAAGTT
                         || ||||  | ||   ||  |     || | | || ||     | |  | |||  |||    | | ||| ||  | ||  |  | |  | | | ||||| | ||||||||||||||||||||||| | ||| || ||||| || ||||| | ||| |||||||||||||| ||||| ||     | || ||  ||
gtaagtgtttttcttaattggtgtttatagtttttctgatctaggtcaactggatctgatcgaatttataaggtttagcttttggtgtgtttgactgaatttttgtttgtgaatctaaagGAAATCGAAGCTTTATCGATTCGATAAGGATGCGAATCAGTGGAAGGAGAGAGGAGCTGGTACTGTGAAGTTCTTAAAGCATAAGAACACTGGGAAGATT
















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|351041202|gb|FQ444179.1|FQ444179
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|351047599|gb|FQ454996.1|FQ454996
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|110369567|gb|EC933730.1|EC933730
EST:     AAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGAT-AGGAAAGGGAAGCAATGGAAAGAAA
genomic: AAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGG-AAGGGAAGCAATGGAAAGAAA
EST: gi|71868411|gb|DT017466.1|DT017466
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|351018625|gb|FQ424732.1|FQ424732
EST:     GTGGTCGCCGTCACCACCGGC---GAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|87584547|gb|DY473671.1|DY473671
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|351051724|gb|FQ449538.1|FQ449538
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|294966892|gb|GW839767.1|GW839767
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|349821588|gb|FQ408147.1|FQ408147
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|349807515|gb|FQ401930.1|FQ401930
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|351041377|gb|FQ447504.1|FQ447504
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|351054857|gb|FQ462887.1|FQ462887
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|110694419|gb|EE071510.1|EE071510
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|110693539|gb|EE069860.1|EE069860
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|351043061|gb|FQ443903.1|FQ443903
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|34320471|gb|CF373225.1|CF373225
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|349826967|gb|FQ419058.1|FQ419058
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|349815553|gb|FQ400709.1|FQ400709
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|71866739|gb|DT015794.1|DT015794
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|349810047|gb|FQ398672.1|FQ398672
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|349808979|gb|FQ406829.1|FQ406829
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|110700918|gb|EE077995.1|EE077995
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|161717051|gb|FC068459.1|FC068459
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|351043448|gb|FQ444048.1|FQ444048
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
EST: gi|349812667|gb|FQ409826.1|FQ409826
EST:     GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCT                         GAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG
genomic: GTGGTCGCCGTCACCACCGGCGAAGAAGAAGAGGACGCCATTCTTGATCTgtacagttac ... agtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattgatgatctctagggttttctctgattggttgttaatcggagtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAGAGGCGTTGGAACTGTGAAGTTCTTGAAGCACAAAGGGTCGGGCAAAGTT
                                   tgttaat  putative branch site (score: 3)
                                  ttgttaat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacagttactttgttaaattctagggtttttattgatgatctctagggttttctctgattggttgttaatcggagtgttttagGAAAGCAAAGCTTTATCGATTCGATAAGGAAGGGAAGCAATGGAAAGAAAGAGGCGTTGGAACTGTGAAGTTCTTGAAGCACAAAGGGTCGGGCAAAGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG