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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacatttctaaatgcccattcttgaacaaaatatcacaatgattttaaatgccaaaaaggcatgtaatctgataaatttgatttgattcttgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT

Basic information

species Vitis vinifera
transcript Vv05s0049g01770.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G27570.1 (Glycine max), 3'ss of exon 3
aacatttctaaatgcccattcttgaacaaaatatcacaatgattttaaatgccaaaaaggcatgtaatctgataaatttgat--ttgattcttgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT
|| ||| || |      | ||||| | | | | |   | | |||  |||   ||  | | ||| | || ||    ||||  |  | || | |  || |||||||||||||||||||||||||||||||  |||||||||| |  || ||||| || |||| |||||||
aatattccttaccaaa-agtcttgtatatattttttgactcattcaaaac-tcagcatgacatttgatgtgtgccattttgtcatggaatttatttttgcagATGAGCATTGGAAGGAAGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT

upper sequence: Vv05s0049g01770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G21510.2 (Glycine max), 3'ss of exon 3
-aacatttctaaatgcccattcttgaacaaaatatcacaatgattttaaatgccaaaaaggcatgtaatctga-taaatttgatttgattcttgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT
 || ||| || |      | || || | | | | |   | | ||   |||   ||  | | ||| | || |||   | ||||   ||    || || |||||||||||||||||||||||||||||||  |||| ||||| |  || ||||| || |||| |||||||
taatattccttaccaaa-agtcatgtatatattttttgactcatccaaaac-tcagcatgacatttgatgtgagccattttgtcatggaatttattttgcagATGAGCATTGGAAGGAAGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCAT
















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|349815714|gb|FQ400870.1|FQ400870
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110381761|gb|EC935318.1|EC935318
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110685840|gb|EE062914.1|EE062914
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|71866301|gb|DT015356.1|DT015356
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|30133607|gb|CB918946.1|CB918946
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|77584480|gb|DV221309.1|DV221309
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|77584572|gb|DV221367.1|DV221367
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110686380|gb|EE063948.1|EE063948
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|30129212|gb|CB914551.1|CB914551
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|77580010|gb|DV218885.1|DV218885
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|29782677|gb|CB348195.2|CB348195
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110715667|gb|EE093980.1|EE093980
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110427971|gb|EC994428.1|EC994428
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|30135899|gb|CB921237.1|CB921237
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACCGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110724989|gb|EE101297.1|EE101297
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110732987|gb|EE108752.1|EE108752
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGANGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|351040235|gb|FQ425321.1|FQ425321
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|30130346|gb|CB915685.1|CB915685
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110731346|gb|EE105675.1|EE105675
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|30130329|gb|CB915668.1|CB915668
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACCGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|351046061|gb|FQ441444.1|FQ441444
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAA                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|351015262|gb|FQ445546.1|FQ445546
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|30131970|gb|CB917309.1|CB917309
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|71886452|gb|DT035507.1|DT035507
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110697840|gb|EE075280.1|EE075280
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110721728|gb|EE097336.1|EE097336
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110731029|gb|EE108785.1|EE108785
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGANGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|30132754|gb|CB918093.1|CB918093
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|22013368|gb|BQ798402.1|BQ798402
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACCGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|351027640|gb|FQ446807.1|FQ446807
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110375910|gb|EC940937.1|EC940937
EST:     AGGATAAGCTTGCTTTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|71886070|gb|DT035125.1|DT035125
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
EST: gi|110703148|gb|EE079739.1|EE079739
EST:     AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAG                         ATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC
genomic: AGGATAAGCTTGCTCTGTGGACTAAGACAGCAACCAACGAGGCTGCTCAGgttctaagcc ... tgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaatgccaaaaaggcatgtaatctgataaatttgatttgattcttgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT
                                         ttcttgtt  CT-rich tract
                          ataaatttgatttgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacatttctaaatgcccattcttgaacaaaatatcacaatgattttaaatgccaaaaaggcatgtaatctgataaatttgatttgattcttgttgtgcagATGAGCATTGGAAGGAAGTGGAAGGAGGTCATTGATGTCACTGATAAGATCACTTACAGCTTTCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - -aaatgcc
- - - - - - - cccattc
- - - - - - - - - - - - aacaaaa
- - - - - - - - - - - - - - - - - cacaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgta