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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATGGTCAAAGTGCATATAGAATCAGTTCTGATCCCTACCAAATTATGGCAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaagcacctgttctgcgttattgttatgaatttgatgcagctaatgagcatatcttctgacgcatgaccaatttggcactctaagaccatggt...

Basic information

species Vitis vinifera
transcript Vv07s0005g02820.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA19G41120.1 (Glycine max), 5'ss of exon 8
TTATGGTCAAAGTGCATATAGAATCAGTTCTGATCCCTACCAAATTATGGCAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaagcacctgttctgcgttattgttatgaatttga-tgcagctaatgagcatatcttctgacgcatgaccaatttggcactctaagaccatggt-
 ||| ||   | |||||| ||| | || ||||||||| |  | || ||| | ||||| ||||||||||| || ||||| ||||| |||||||||||||||||||| |||| | | |   |  |  | |||  || |||||   |||| ||         |  ||||||      |  |   |   | |  ||    ||  | 
CTATAGTGTCAATGCATACAGAGTGAGCTCTGATCCCCATGATATCATGACGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTCACTGTTTATGAGgtaaatgaaa-ctcttacac-actcttttgcgattaatttttctgcaacttcctttgtcaatttctgaaaacccaaaaccatcctatttaaaatttataatt

upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA03G38520.1 (Glycine max), 5'ss of exon 8
TTATGGTCAAAGTGCATATAGAATCAGTTCTGATCCCTACCAAATTATGGCAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaagcacctgttctgcgttattgttatgaatttg-atgcagctaatgagcatatcttctgacgcatgaccaatttggcactctaagaccatggt
 ||| ||   |||||||| ||| |||  ||||||||| |  | || ||||| ||||| ||||||||||| || ||||| ||||| || || |||||||||||||| |||| | | |   |  |  |||||  || |||||  ||||| ||     |   |  ||||||      |  |   |   | |  ||    ||  |
CTATAGTGTTAGTGCATACAGAGTCAACTCTGATCCCCATGATATCATGGCGGAAGTTTACAAGAATGGGCCAGTTGAAGTTGCATTTACCGTTTATGAGgtaaatgaaaactcttaccc-actctattgcgataaatttttatgcaacttccatggtcaatttctgaaaacccaaaaccatcctatttaaaatttataat

upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT1G02305.1 (Arabidopsis thaliana), 5'ss of exon 8
TTATGGTCAAAGTGCATATAGAATCAGTTCTGATCCCTACCAAATTATGGCAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaagcacctgttctgcgttattgttatgaatttgatgcagctaatgagcatatcttctgacgcatgaccaatttggcactctaagaccatggt
|||||||   ||||| || |   |||| ||| | ||  |  | |||||||||||||| ||||| |||||||||||||||||||||||||||||||| ||||||||    ||   ||    ||  | |  | ||||| | |  |   |   |    || || |||  | | ||   |  | ||    ||||          
TTATGGTGTTAGTGCGTACAAGGTCAGATCTCACCCTGATGACATTATGGCAGAAGTTTACAAAAATGGACCTGTTGAGGTTGCCTTCACTGTTTACGAGgtaaatactaggttctagagtg-atcaaagatatgattatattatgg---aactccacatgttc--atgtat---ctttctgttcttctacag-------

upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT1G02300.1 (Arabidopsis thaliana), 5'ss of exon 7
TTATGGTCAAAGTGCATATAGAATCAGTTCTGATCCCTACCAAATTATGGCAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaagcacctgttctgcgttat-tgttatgaatttgatgcagctaatgagcatatcttctgacgcatgaccaatttggcactctaagaccatggt
 ||||||    | ||||| ||||||| | |||| ||  |  | |||||||| || || ||||||||||||||||| |||||||| || || ||||| |||||||   |||  |  | |  |   | |     |||  |||  ||   | | | |  || || |||      |||     ||| |  ||  |          
CTATGGTGTCGGCGCATACAGAATCAATCCTGACCCTCAAGACATTATGGCTGAGGTTTACAAGAATGGACCTGTCGAGGTTGCTTTTACCGTTTACGAGgtaatgaaaaagatttttgattgatcaaaccatattgattatatcttggtgaagtccacattttc------atgtatctttttgttcttcag---------

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|22010916|gb|BQ795950.1|BQ795950
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110716152|gb|EE090883.1|EE090883
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|161711642|gb|FC061266.1|FC061266
EST:     CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|22012339|gb|BQ797373.1|BQ797373
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110717706|gb|EE093795.1|EE093795
EST:     CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|30302325|gb|CB979119.1|CB979119
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110375663|gb|EC940672.1|EC940672
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|352764436|gb|FQ472793.1|FQ472793
EST:     CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTTTGAGTCAGGAGTTTACAGATACACCTCCGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|26262146|gb|CA813209.1|CA813209
EST:     CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110703469|gb|EE080340.1|EE080340
EST:     CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110379925|gb|EC945151.1|EC945151
EST:     CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110731310|gb|EE105611.1|EE105611
EST:     CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|351041020|gb|FQ443796.1|FQ443796
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110420331|gb|EC986603.1|EC986603
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110406529|gb|EC972106.1|EC972106
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110396856|gb|EC962558.1|EC962558
EST:     TGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: TGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110406274|gb|EC971841.1|EC971841
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|351027477|gb|FQ444726.1|FQ444726
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110426643|gb|EC993059.1|EC993059
EST:     CAGAAGTGTATAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
EST: gi|110360706|gb|EC924023.1|EC924023
EST:     CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAG                         GATTTTGCTCATTACGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC
genomic: CAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaa ... ttgttcacagGATTTTGCTCATTATGAGTCAGGAGTTTACAGATACACCACAGGCGATGTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTATGGTCAAAGTGCATATAGAATCAGTTCTGATCCCTACCAAATTATGGCAGAAGTGTACAAGAATGGACCTGTTGAGGTTGCCTTCACTGTTTATGAGgtaaaagaaagcacctgttctgcgttattgttatgaatttgatgcagctaatgagcatatcttctgacgcatgaccaatttggcactctaagaccatggt

- - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaagca