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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttctataatgtgaaatagtaaaattttaagaaaaatgcacttggggtattgctttagattatccattataataatgaaacttctttttgtttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGTAACTTAAAGCACTT

Basic information

species Vitis vinifera
transcript Vv00s0187g00340.t01
intron # 10
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|110690312|gb|EE067299.1|EE067299
EST:     TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
EST: gi|161719983|gb|FC067725.1|FC067725
EST:     TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
EST: gi|110363209|gb|EC926783.1|EC926783
EST:     TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
EST: gi|110402111|gb|EC968746.1|EC968746
EST:     TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGCATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
EST: gi|110361741|gb|EC925237.1|EC925237
EST:     TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGCATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
EST: gi|161721615|gb|FC070825.1|FC070825
EST:     TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGCATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
EST: gi|110364853|gb|EC928407.1|EC928407
EST:     TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGCATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
EST: gi|110372453|gb|EC936619.1|EC936619
EST:     TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
EST: gi|110392090|gb|EC957263.1|EC957263
EST:     TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGCATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
EST: gi|45771743|gb|CN007595.1|CN007595
EST:     TGCCGTAT-TGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGCATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
EST: gi|110733040|gb|EE108853.1|EE108853
EST:     TGCCGTATCTGGCTGAAAAA-TATCCCAAAACTATGACATTTTCTTAGAG                         GTTGGGATTAAACCTGCTGGACATAAAA-TTCGTGCATTG
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTG
EST: gi|110702040|gb|EE080300.1|EE080300
EST:     TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAG                         GTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT
genomic: TGCCGTATCTGGCTGAAAAAATATCCCAAAACTATGACATTTCCTTAGAGgtatatcaaa ... tttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtattgctttagattatccattataataatgaaacttctttttgtttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGTAACTTAAAGCACTT
                                   cttctttttgtttttg  CT-rich tract
                    attataataatgaaac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttctataatgtgaaatagtaaaattttaagaaaaatgcacttggggtattgctttagattatccattataataatgaaacttctttttgtttttgcaagGTTGGGATTAAACCTGCTGGACATAAAAATTCGTGCATTGTCACAAGGAGTAACTTAAAGCACTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - -agtaaaa
- - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - -gcacttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgaaa