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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatccttcaccccttaaataattgattggacggttagaagttatggtactccttttatcctaaaaatagctatttctttcatcaaatttatata...

Basic information

species Vitis vinifera
transcript Vv07s0031g02190.t01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA04G39980.1 (Glycine max), 5'ss of exon 13
ATATATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatccttcaccccttaaataattgattggacggttagaagttatggtactccttttatcctaaaaatagctatttctttcatcaaatttatata-----
| |||||||||||||| ||||||||||||||||| || |||||||| || ||||||||        ||    || |  |  |||||  |    | |   |     || |  |||   | |  |  |   |  || |   || ||| |||| ||     
ACATATGTTCTCTTCGTTCTGATGTGGAAAGGCTTGCATTCTCTGTCATATGGgtatgcatgatcacatatttttacca--tgattaaatttattgtgatct--atatttttttgtacatgcatgtgcattattataggataaaaattat-tatttgg

upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA06G14870.2 (Glycine max), 5'ss of exon 13
ATATATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgta--tgttatccttcaccccttaaataattgattggacggttagaagttatgg-----tactccttttatcctaaaaatagctatttctttcatcaaatttatata
| |||||||||||||| ||||||||||||||||| || |||||||| || ||||||  ||  ||| |  |    |   || ||| | |  |  || |     ||        |  ||  ||| | || |        |   ||| |||    | |     
ACATATGTTCTCTTCGTTCTGATGTGGAAAGGCTTGCATTCTCTGTCATATGGgtaagtgcaatcatatatttttaccatgattaaatttattgtgatctactactactatatgttctctttgttctgatgtgga--aaggcttgcattctctgt-----

upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA06G14870.2 (Glycine max), 5'ss of exon 13
ATATATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgta--tgttatccttcaccccttaaataattgattggacggttagaagttatgg-----tactccttttatcctaaaaatagctatttctttcatcaaatttatata
| |||||||||||||| ||||||||||||||||| || |||||||| || ||||||  ||  ||| |  |    |   || ||| | |  |  || |     ||        |  ||  ||| | || |        |   ||| |||    | |     
ACATATGTTCTCTTCGTTCTGATGTGGAAAGGCTTGCATTCTCTGTCATATGGgtaagtgcaatcatatatttttaccatgattaaatttattgtgatctactactactatatgttctctttgttctgatgtgga--aaggcttgcattctctgt-----

upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: AT2G17510.1 (Arabidopsis thaliana), 5'ss of exon 13
ATATATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatccttcaccccttaaataattgattggacggttagaagttatggtactccttttatcctaaaaatagctatttctttcatcaaatttatata
|||| || |||||| |  |||||||||||||||| || ||||| |||||||||||||| | |         |     | ||||   ||    |||| |  | |||||  |  || | | |||  |||  |  |   || |             
ATATTTGCTCTCTTAGAGCTGATGTGGAAAGGCTTGCATTCTCGGTTATTTGGgtatgctttatccattttcaattgtcattgcgaggcatattagcaaat-tggtaaacggtt-agcttaagcataattcatatatttag------------

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|32268690|gb|CD717849.1|CD717849
EST:     TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGG                         GAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
genomic: TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatc ... taaatttcagGAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
EST: gi|32249460|gb|CD715279.1|CD715279
EST:     TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGG                         GAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
genomic: TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatc ... taaatttcagGAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
EST: gi|32247182|gb|CD713001.1|CD713001
EST:     TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGG                         GAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
genomic: TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatc ... taaatttcagGAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
EST: gi|110357405|gb|EC920922.1|EC920922
EST:     TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGG                         GAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
genomic: TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatc ... taaatttcagGAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
EST: gi|32248522|gb|CD714341.1|CD714341
EST:     TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGG                         GAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
genomic: TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatc ... taaatttcagGAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
EST: gi|32267807|gb|CD716966.1|CD716966
EST:     TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGG                         GAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
genomic: TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatc ... taaatttcagGAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
EST: gi|32267641|gb|CD716604.1|CD716604
EST:     TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGG                         GAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
genomic: TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatc ... taaatttcagGAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
EST: gi|32248261|gb|CD714080.1|CD714080
EST:     TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGG                         GAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC
genomic: TATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatc ... taaatttcagGAGATGACACCTCAAGCAGAGATTATTTCTACAAAATATACAAAAAGTATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATATATGTTCTCTTCGGTCTGATGTGGAAAGGCTAGCTTTCTCTGTTATTTGGgtatgttatccttcaccccttaaataattgattggacggttagaagttatggtactccttttatcctaaaaatagctatttctttcatcaaatttatata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaata