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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtagttttgcttatctgggtaatatattacgataattgtcattgaggaggccgtggaaacacttctgtattgaacaaatcatccactggttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACTGCTCCCGGGTTCTGGCTTTCTGGGCTAAGGCTTTTTGAGCAGGCTGAAT

Basic information

species Vitis vinifera
transcript Vv04s0008g02290.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g02290.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G12380.2 (Glycine max), 3'ss of exon 1
aagtagttttgcttatctgg--gtaatatattacgataattgtcattgaggaggccgtggaaacacttctgtattgaacaaatcatccactggttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACTGCTCCCGGGTTCTGGCTTTCTGGGCTAAGGCTTTTTGAGCAGGCTGAAT
  ||   | |    |  | |  |||| | |  | | || || |  ||         |   |||  ||     |||||     |  |   |||||  |  ||||||||||||||| ||||||| ||||||||| | |||| |||||| || || || || || ||||||  | |||| ||  | ||||||||||||||| | |
ccgttcctctctcaactttgatgtaaaagaaaatgttagttattgttcgctgaaaagctaaaa-gctaggaaattgactgtgttgtt-gctggtggtgacagTTTTATTCAGTTCTATGCCGAGTTGCTACTGTGTTGAAGACCAGGTATACAGCACCAGGTTTCTGGAATGCTGGACTGGGCCTTTTTGAGCAGGCTCATT
















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|110713662|gb|EE089777.1|EE089777
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|161713609|gb|FC063419.1|FC063419
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110720159|gb|EE095835.1|EE095835
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110719678|gb|EE095026.1|EE095026
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110723887|gb|EE099235.1|EE099235
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|351027748|gb|FQ446915.1|FQ446915
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTACTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110712068|gb|EE089269.1|EE089269
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110713425|gb|EE089336.1|EE089336
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110720612|gb|EE096687.1|EE096687
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110710869|gb|EE087414.1|EE087414
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|349830496|gb|FQ416794.1|FQ416794
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|33402240|gb|CF207867.1|CF207867
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|349823913|gb|FQ415324.1|FQ415324
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110713275|gb|EE089053.1|EE089053
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110375238|gb|EC940205.1|EC940205
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|30302702|gb|CB979496.1|CB979496
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110699234|gb|EE076052.1|EE076052
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|294966281|gb|GW837532.1|GW837532
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|349825321|gb|FQ418053.1|FQ418053
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|110718678|gb|EE095783.1|EE095783
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|349823912|gb|FQ415323.1|FQ415323
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|352794437|gb|FQ481668.1|FQ481668
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|351037479|gb|FQ460678.1|FQ460678
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|352763367|gb|FQ471679.1|FQ471679
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
EST: gi|351038146|gb|FQ465263.1|FQ465263
EST:     CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTG                         TTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT
genomic: CTCTGCTTGTTGACCACTACTCTTCTTCTTCACCTTCTCTGCGAAAATTGgtatccaatt ... gttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaggaggccgtggaaacacttctgtattgaacaaatcatccactggttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACTGCTCCCGGGTTCTGGCTTTCTGGGCTAAGGCTTTTTGAGCAGGCTGAAT
                        tattgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagtagttttgcttatctgggtaatatattacgataattgtcattgaggaggccgtggaaacacttctgtattgaacaaatcatccactggttattgcagTTTTATTCAGTTGTATGCCGGGTTGCTACTATTTTGAGGACCAGATACACTGCTCCCGGGTTCTGGCTTTCTGGGCTAAGGCTTTTTGAGCAGGCTGAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatcca