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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactcacaatctcccggctcttcctttttcccctcaatctttctccatcctctaattctatatgtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTCTCTCCGCCTCAGTTACATTCACATCTAAATGGCAGTGCCGGAGGATTTC

Basic information

species Vitis vinifera
transcript Vv01s0026g01050.t01
intron # 2
splice site 3'
intron type U2

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|349812747|gb|FQ409906.1|FQ409906
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|110366303|gb|EC930132.1|EC930132
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|18459099|gb|BM437377.1|BM437377
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|349815627|gb|FQ400783.1|FQ400783
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351056670|gb|FQ443297.1|FQ443297
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351055345|gb|FQ441943.1|FQ441943
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|349822290|gb|FQ412554.1|FQ412554
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|156735865|gb|EV239979.1|EV239979
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351032103|gb|FQ460360.1|FQ460360
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351052779|gb|FQ456506.1|FQ456506
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|161720326|gb|FC071179.1|FC071179
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|349818411|gb|FQ409186.1|FQ409186
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTGTGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|18459156|gb|BM437434.1|BM437434
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|349809289|gb|FQ399063.1|FQ399063
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|110359399|gb|EC920819.1|EC920819
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|161713565|gb|FC062510.1|FC062510
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351055761|gb|FQ452226.1|FQ452226
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|30303667|gb|CB980461.1|CB980461
EST:     ATAATAGGAGACGTCGTATATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCATGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|349813075|gb|FQ411315.1|FQ411315
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351056138|gb|FQ453600.1|FQ453600
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351034611|gb|FQ457968.1|FQ457968
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|352794043|gb|FQ479285.1|FQ479285
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|30134584|gb|CB919922.1|CB919922
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|349815725|gb|FQ400881.1|FQ400881
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|18459460|gb|BM437738.1|BM437738
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351048218|gb|FQ442188.1|FQ442188
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|349822259|gb|FQ412523.1|FQ412523
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCGGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|349817522|gb|FQ407312.1|FQ407312
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351047355|gb|FQ451867.1|FQ451867
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|349820855|gb|FQ404229.1|FQ404229
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAAGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351028371|gb|FQ427267.1|FQ427267
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGGGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|34320276|gb|CF373030.1|CF373030
EST:     AT-ATAGGAGACGTCGT-GATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|351038103|gb|FQ460845.1|FQ460845
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|352795690|gb|FQ480278.1|FQ480278
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|349811890|gb|FQ410687.1|FQ410687
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|28962610|gb|CB341643.1|CB341643
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
EST: gi|110729425|gb|EE105376.1|EE105376
EST:     ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACG                         TTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC
genomic: ATAATAGGAGACGTCGTAGATCTAGTCTCTTCGACATCACCGCCGATACGgtaactcaca ... gtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcctttttcccctcaatctttctccatcctctaattctatatgtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTCTCTCCGCCTCAGTTACATTCACATCTAAATGGCAGTGCCGGAGGATTTC
                               ctctaat  putative branch site (score: 3)
                                  taattctatatgtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactcacaatctcccggctcttcctttttcccctcaatctttctccatcctctaattctatatgtattcgtagTTTATGGGCTCTACAATATTGGAGGAAGATCAGGTCCACCAAGAGACCGTCTCTCCGCCTCAGTTACATTCACATCTAAATGGCAGTGCCGGAGGATTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT