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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaacagtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta...

Basic information

species Vitis vinifera
transcript Vv02s0025g01580.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G138410_T01 (Zea mays), 5'ss of exon 7
GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaacagtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta-
| |||||||  |||||| | ||||| |||||||||||||| || |||||||| ||    |||||||||||||| |||||||||||         ||||| || |       |   |||  |  | |    ||    ||    |    ||  ||| ||  | |    | ||||            
GATGTGAAGCATACAACCTTGGAACCGGAAAAGGAACATCAGTGTTGGAGATAGTCAATGCATTTGAGAAGGCTTCTGGAAAGgtac-acctgatttaatatatttaggactccctccatttctttttagttgtcgctgtatagtgcaattttgtactatctagcgacaactaaaacgaaacgg

upper sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G469523_T02 (Zea mays), 5'ss of exon 2
GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaa--cagtttaacattt---cctactttaattcctctcttctggttttccaactcccaaagaaaagat-------tgaacctttttctaag-----aactttttatttcta-----------------------
| ||||||| ||||||| | ||||| |||| ||| ||||| ||  ||||||| |||  ||||||||||||||| ||||| ||||| |  ||   |    || ||||   |||    | |||  |  | | | |   | || ||  |  ||      |       | | | ||  | || |     || || | ||||  |                       
GGTGTGAAGCGTACAACCTTGGAACCGGAAGAGGTACATCTGTGCTGGAGATTGTTAAAGCATTTGAGAAGGCTTCTGGGAAGgtatacaagataaaagaaaatttaggccttgcatgattattagcattttgcaatgcagcttacctaggtttactgccttgataagctttcgtttatgctcctaagttgtgatttacaaggacaattttgctaccttgtag

upper sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA11G01940.3 (Glycine max), 5'ss of exon 7
GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtg--ttgaacagtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta
| ||||| || || ||| ||||||||||||| |||||||| |||||||||||||||  ||| ||||||| ||||||||||||||||  | ||| | | || | ||| ||  | | ||   |  |   ||       ||  |        ||  || |     ||| | | | | |||  ||    
GTTGTGAGGTTTATAACCTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTTCGAGCTTTTGAGATGGCATCTGGAAAGgtgaatagaataatgtatctttttctggtcttatatatgccaattgtcaacataatcctggccatcaactttaatgtcattttttaaagcatttggttgt--

upper sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA01G43540.2 (Glycine max), 5'ss of exon 6
-----------------GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtg-ttgaacagtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta
                 | ||||| || || ||| ||||||||||||| |||||||| |||||||||||||||  ||| ||||| | |||||||||||||||  | ||| | | || | ||| ||  | | ||   | ||   ||       ||  |     |  ||  || |  |  ||| | | | | |||| ||  | 
TCATGGTGTATTTACAGGTTGTGAGGTTTATAACCTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTTAGAGCTTTTGAAATGGCATCTGGAAAGgtaatagaataatgtatctttttctggtcttatatatgtcaattgtcaacataatcctggctgtcaactttaatgccattttttaaagcattttgttgtt-

upper sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA01G43540.1 (Glycine max), 5'ss of exon 7
GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgtt-gaacagtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta
| ||||| || || ||| ||||||||||||| |||||||| |||||||||||||||  ||| ||||| | |||||||||||||||  | ||| | | || | ||| ||  | | ||   | ||   ||       ||  |     |  ||  || |  |  ||| | | | | |||| ||  | 
GTTGTGAGGTTTATAACCTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTTAGAGCTTTTGAAATGGCATCTGGAAAGgtaatagaataatgtatctttttctggtcttatatatgtcaattgtcaacataatcctggctgtcaactttaatgccattttttaaagcattttgttgtt-

upper sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA08G02690.1 (Glycine max), 5'ss of exon 7
GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaac----agtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta
| ||||| || || ||||||||||||||||| |||||||| ||||||||||||||    || |||||  |||| |||||||||||     ||    || || |  | |  |  | ||  | || ||   |  | ||  ||  ||    | ||   ||   | ||||| ||  ||  |   ||||   
GTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTAAACGCTTTTGAACAGGCCTCTGGAAAGgtaacagacttatagctttatgtctgttcttgtatctactatccatta-tattataaaccctgctgcaattttttggcatttttatagaaa--tgcaatttgg-

upper sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA05G36850.1 (Glycine max), 5'ss of exon 7
GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaacagtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta-----
| ||||| || || ||||||||||||||||| |||||||| ||||||||||||||    || |||||  |||| |||||||||||     ||   ||   | ||| |   ||   |  | |||  |   | |   |       || | |   | ||||||  |  ||    ||   | || ||     
GTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCTGTTTTGGAGATGGTAAACGCTTTTGAACAGGCCTCTGGAAAGgtaacagac---ttgtaacttcatgtcttttcttgtatctattatctatt--atctatgtagtatattataaaccttgctgcaattttttggcagttttatataa

upper sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT1G64440.1 (Arabidopsis thaliana), 5'ss of exon 7
GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttga-acagtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta------------------------------
| ||||| || |||||| ||||||| |||||||||||| | || |||||||||||||  ||||||||||| || ||||||| |||    | |    ||  |   | ||   |   |  |||||         || || ||  ||            || | | | |     ||||  ||  | |                              
GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtacgcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag

upper sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT4G10960.1 (Arabidopsis thaliana), 5'ss of exon 7
GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaacagtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta
| ||||||||||||||  | ||||||||||| |||||||| ||| | || |||||||  || ||||| || ||||| ||||||||    |           |||| |  ||  || | |   ||||   |     |         |||   ||||||  |||| |  || |            
GTTGTGAAGTGTACAATCTCGGAACAGGAAATGGAACATCAGTTCTTGAAATGGTTGATGCTTTTGAAAAAGCATCCGGAAAGgtaaaaagtgacactttctttcatctttagatacttggattctaagtc----atgttttgttaaacctttgaactcttttgtg-gatcag----------

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|27586173|gb|CB008868.1|CB008868
EST:     GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAG                         AAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
genomic: GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
EST: gi|110720449|gb|EE096391.1|EE096391
EST:     AACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAAGCATCTGGGAAAG                         AAA-TTCCTCTAGTCATGGCCGGACGAAGACCTGNTGATGCTGAGAATGT
genomic: AACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGG-AAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGT
EST: gi|110358293|gb|EC922402.1|EC922402
EST:     GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAG                         AAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
genomic: GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
EST: gi|110719820|gb|EE095280.1|EE095280
EST:     AACATCNGTTTTGGAGATGGTTGCANCATTTGAGAAGGCATCTGGGAAAG                         AAA-TTCCTCTAGTCATGGCCCGACGAAGACCTGGTGATGCTGAAATTGT
genomic: AACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGG-AAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGT
EST: gi|110718272|gb|EE094913.1|EE094913
EST:     GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAAGCATCTGGAAAG                         AAA-TTCCTCTAGTCATGGCCGGACGAAAACCTGGTGATGCTGAGATTGTT
genomic: GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
EST: gi|110720256|gb|EE096017.1|EE096017
EST:     AACATCCGTTTTTGGAGATGGTTGCAGCATTTGAAAAGGCATCTTGAAAG                         AAAATTCCTCTAGTCATGGCCGGACCAAAACCTGGTGATGCTGAAATTGTT
genomic: AACATCGGTTTT-GGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
EST: gi|110720916|gb|EE097257.1|EE097257
EST:     GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAAAAG-CATCTGGAAAG                         AAAAT-CCTCTAGTCATGGCCGGACGAA-ACCTGGTGATGCTGAGATTGTT
genomic: GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
EST: gi|30329922|gb|CD013184.1|CD013184
EST:     GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAG                         AAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
genomic: GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
EST: gi|110718494|gb|EE095391.1|EE095391
EST:     GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAG                         AAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
genomic: GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
EST: gi|110720332|gb|EE096162.1|EE096162
EST:     GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAG                         AAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTTGT
genomic: GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATT-GT
EST: gi|110385299|gb|EC949809.1|EC949809
EST:     GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAG                         AAAATTCCTCTAGTCATGGCCGGAGGAAGACCTGGTGATGCTGAGATTGTT
genomic: GAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT
EST: gi|110718330|gb|EE095043.1|EE095043
EST:     AACATCCGTTTTGAAGAAGGTTGCAACATTTGAAAAAGGC-TCTGGAAAG                         AAAATTCCTCTAGTCATGGCCGGACGAAAACCTGGTGATGCTGAAATTGTT
genomic: AACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAA-GGCATCTGGAAAGgtgttgaaca ... cttgttccagAAAATTCCTCTAGTCATGGCCGGACGAAGACCTGGTGATGCTGAGATTGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttgaacagtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta

- - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaa