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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTGGTGGTGGTGTTCGAGGCTATGAAAATGGTCCTGCCTTTGTTCCTGGAGAAATTTGTCGAATATTTCGATCAGCCGGTGAAAAGTTCCTGCACCTTgtacgtgtgaaaacttctctagactttgaactgacaatgtttccatgttttgcattgggttgtcctagtggctactgtagatgtggagtccattgatact...

Basic information

species Vitis vinifera
transcript Vv07s0005g01440.t01
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g01440.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA10G01660.1 (Glycine max), 5'ss of exon 16
TTCTGGTGGTGGTGTTCGAGGCTATGAAAATGGTCCTGCCTTTGTTCCTGGAGAAATTTGTCGAATATTTCGATCAGCCGGTGAAAAGTTCCTGCACCTTgtacgtgtgaaaacttctctagactttgaactgacaatgtt-tccatgttttgcattgggt-tgtcctagtggctactgtagatgtggagtccattgatact
|||||||||| ||||| |||||||||||  ||| ||||||||||||||||||||||| ||||||| |||||| ||||| |||||||| ||| ||||||| |||  | |  ||  |  | |   ||||  |  |  | ||   | ||| |    || |  || | || | ||   |       ||||   ||  |   |    
TTCTGGTGGTAGTGTTAGAGGCTATGAATCTGGACCTGCCTTTGTTCCTGGAGAAATATGTCGAAAATTTCGGTCAGCTGGTGAAAAATTCTTGCACCTGgtatatttttaagttcatattttcttttcaacggaactgcaattcatatgacacactctgtatatcgttgtccttgtca-gtatgtcatgttaaacaagtg-

upper sequence: Vv07s0005g01440.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA02G01610.1 (Glycine max), 5'ss of exon 16
TTCTGGTGGTGGTGTTCGAGGCTATGAAAATGGTCCTGCCTTTGTTCCTGGAGAAATTTGTCGAATATTTCGATCAGCCGGTGAAAAGTTCCTGCACCTTgtacgtgtgaaaacttctctagactttgaactgacaatgtttccatgttttgcattgggttgtcctagtggctactgtagatgtggagtccattgatact---
|||||||||| ||||| |||||||||||  ||| ||||||||||||||||||||||| ||||||| |||||| ||||| |||||||| ||| ||||||| |||  | |  ||  |  | |   ||||  | ||  | ||   |   || |  || |  ||     | || |    |||   | ||  |  |  | || ||   
TTCTGGTGGTAGTGTTAGAGGCTATGAATCTGGGCCTGCCTTTGTTCCTGGAGAAATATGTCGAAAATTTCGGTCAGCTGGTGAAAAATTCTTGCACCTGgtatatttttaagttcatattttcttttcaatggaactgcaact-cgtatgacactctgta--tattgttgtccttgtctgtatgtcgctccctcattcttat
















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|30324169|gb|CD007431.1|CD007431
EST:     TTCCTGCACNCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
genomic: TTCCTGCAC-CTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
EST: gi|71889645|gb|DT038700.1|DT038700
EST:     GAGAAATTTGTCGAATATTTCGATCAGCCGGTGAAAAGTTCCTGCACCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
genomic: GAGAAATTTGTCGAATATTTCGATCAGCCGGTGAAAAGTTCCTGCACCTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
EST: gi|30323970|gb|CD007232.1|CD007232
EST:     GAAAAGTTCCTGCACNCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
genomic: GAAAAGTTCCTGCAC-CTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
EST: gi|27579832|gb|CB002527.1|CB002527
EST:     GAGAAATTTGTCGAATATTTCGATCCGCTGGTGAAAAGTTCCTGCACCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
genomic: GAGAAATTTGTCGAATATTTCGATCAGCCGGTGAAAAGTTCCTGCACCTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
EST: gi|32267461|gb|CD716424.1|CD716424
EST:     GAAAAGTTCCTGCACCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
genomic: GAAAAGTTCCTGCACCTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
EST: gi|30325708|gb|CD008970.1|CD008970
EST:     GAAAAGTTCCTGCACNCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
genomic: GAAAAGTTCCTGCAC-CTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
EST: gi|71855179|gb|DT004234.1|DT004234
EST:     GAGAAATTTGTCGAATATTTCGATCAGCCGGTGAAAAGTTCCTGCACCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
genomic: GAGAAATTTGTCGAATATTTCGATCAGCCGGTGAAAAGTTCCTGCACCTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
EST: gi|30327626|gb|CD010888.1|CD010888
EST:     GAAAAGTTCCTGCACNCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
genomic: GAAAAGTTCCTGCAC-CTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
EST: gi|32269349|gb|CD718508.1|CD718508
EST:     GAAAAGTTCCTGCACCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
genomic: GAAAAGTTCCTGCACCTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
EST: gi|32269302|gb|CD718461.1|CD718461
EST:     GAAAAGTTCCTGCACNCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
genomic: GAAAAGTTCCTGCAC-CTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
EST: gi|32248389|gb|CD714208.1|CD714208
EST:     GAAAAGTTCCTGCACNCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
genomic: GAAAAGTTCCTGCAC-CTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
EST: gi|32267654|gb|CD716617.1|CD716617
EST:     GAAAAGTTCCTGCACCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
genomic: GAAAAGTTCCTGCACCTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
EST: gi|32268218|gb|CD717377.1|CD717377
EST:     GAAAAGTTCCTGCACCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
genomic: GAAAAGTTCCTGCACCTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
EST: gi|32248728|gb|CD714547.1|CD714547
EST:     GAAAAGTTCCTGCACNCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
genomic: GAAAAGTTCCTGCAC-CTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
EST: gi|32270860|gb|CD720019.1|CD720019
EST:     GAAAAGTTCCTGCACNCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
genomic: GAAAAGTTCCTGCAC-CTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTT
EST: gi|32268333|gb|CD717492.1|CD717492
EST:     GAAAAGTTCCTGCACCTT                         TATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC
genomic: GAAAAGTTCCTGCACCTTgtacgtgtga ... tttttttcagTATATAAATATGAGGACTCAAAAAATATCAGTTCTTTTGAGGAAGAGGTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCTGGTGGTGGTGTTCGAGGCTATGAAAATGGTCCTGCCTTTGTTCCTGGAGAAATTTGTCGAATATTTCGATCAGCCGGTGAAAAGTTCCTGCACCTTgtacgtgtgaaaacttctctagactttgaactgacaatgtttccatgttttgcattgggttgtcctagtggctactgtagatgtggagtccattgatact

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgaaaa