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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattattgtctgtgttgctgtgctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat...

Basic information

species Vitis vinifera
transcript Vv09s0002g00170.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 8
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattattgtctgtgttgctgtg-ctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat-------------
| || || |||||||| |||||||||||| | || ||||| || || || ||||||||||||||  | ||||| ||||| ||||| ||||| ||||| ||||   |||  || | | | ||  |   | | | | ||       || |   ||||    |   | |         |    ||   ||    |    |   |             
GGGGTGATAATGAGGTTCAGCGTACCATGTTGGAAATTGTGAACCAACTCGATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgt--attgcatatcat-actgtgtagctatttatctttaaacatctgcatgtgttcaggactatcgccacatgagtagagctgagaagctgaccacattttcttgttttgtcag

upper sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 8
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattattgtctgtgttgctgtgctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgaca-at
|||| ||||||||||| |||||||| ||| | || || ||||| ||||||||||||||||||||  |||| || ||||||||||| ||||| || |||||||   ||   |   | | ||  | | ||     ||| | |     | |  | |  |   |        |   |||| |     || |   | | || | ||
GTGGCGACAATGAGGTGCAGCGTACAATGTTGGAAATAGTAAACCAGCTTGATGGGTTTGATGCAAGAGGGAACATCAAAGTTCTCATGGCCACTAATAGgtattttatttttttcccttctactctttctcatgtggttccag-atccttttatgtgcttacctcgagctctattctgaagctattatcagaagaaacat

upper sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G110185_T04 (Zea mays), 5'ss of exon 7
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggatt----attgtctgtgttgctgtgctaccactgttagaaatggttgttggggtt---atttttctagtaatgcaatatgacaat----------------------------------------------------------------------------
|||| ||||||||||| |||||||| ||| | || || ||||| || |||||||||||||||||  |||| || ||||||||||| ||||| || |||||||   ||  |   || |    ||||    ||  | |    ||||   ||   |||   | | | | || |     |    | || |  |  ||  |  |||                                                                                  
GTGGTGACAATGAGGTGCAGCGTACAATGTTGGAAATAGTAAACCAACTTGATGGGTTTGATGCAAGAGGGAACATCAAAGTTCTCATGGCCACTAATAGgtattttttcattctactcgtgattccagatccttttatgtgcttaactcgtactcaaacacaggattttgaatatgtgaacttctgcatgaaacctttataggctccatgccttgagttgatatggcaatttattggccgtatcctaggccctggaagctgaccaccttttcccccctccag

upper sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA07G05220.1 (Glycine max), 5'ss of exon 8
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattat-tgtctgtgttgctgtgctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat
|||| ||||||||||| ||||| ||||||||||| ||||| |||||||||||||||||||||||||| ||||| ||||||||| | |||||||| |||||||| ||||  |   ||  |  ||  || | ||||   |||    ||  |  |  |    |||  |           |||   | | ||    | |   || 
GTGGTGACAATGAGGTTCAGCGCACCATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGGGGAAACATCAAAGTTTTGATGGCAACTAATAGgttggttgattttatt-gtgagagcatgtctctgcaatgcgagtctttccataatgatgatgcattccaaatgccctttcaaattcattttttcttgtaag

upper sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA16G01810.1 (Glycine max), 5'ss of exon 8
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattattgtctgt----gttgctgtgctaccactgttagaa--atggt-tgttggggttatttttctagtaatgcaatatgacaat
|||| ||||||||||| ||||| ||||||||||| ||||| |||||||||||||||||||||||||| ||||| ||||||||| | |||||||| || ||||| ||||  |   |  | || |    ||||| |    ||    |||| |    ||  | ||  ||| |   ||     |    || ||  ||| |||| |      
GTGGTGACAATGAGGTTCAGCGCACCATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGGGGAAACATCAAAGTTTTGATGGCAACTAACAGgttggttgatt--ttataatgaaagcatgtctctaacagtcaacgtgccagttttgccataattatgatgcattcaaaatgccctttta--aattcaattttcg---

upper sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA19G45140.1 (Glycine max), 5'ss of exon 8
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggct--accttcattggattattgtctgtgttgctgtgctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat-
| || || |||||||| ||||| || |||||||| ||||| |||||||||||||||||||||||||| ||||| ||||||||  | |||||||| || |||||   ||  |   |  | ||  ||| ||| ||  | | | |       || | |||  |  | |  |    ||||  |  | || ||     |   |  || 
GCGGTGATAATGAGGTTCAGCGCACTATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGTGGAAACATCAAAGTCTTGATGGCAACTAACAGgttttctgatttggctattatatgatgattttcactttagtt-catactcagttttactacagatgttcactgttaagt--caagaaagtatctccaagcatg

upper sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA03G42370.2 (Glycine max), 5'ss of exon 8
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggct--accttcattggattattgtctgtgttgctgtgc--taccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat
|||| || |||||||| ||||| || |||||||| ||||| |||||||||||||||||||||||||| ||||| ||||||||  | |||||||| || |||||   ||  |   |  | ||  |||| |    |  |||  |   |  |   ||||       |   |   |    ||| |  ||  || | ||  | |     
GTGGTGATAATGAGGTTCAGCGCACTATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGTGGAAACATCAAAGTCTTGATGGCAACTAACAGgttttctgatttggctattatatgattttcactttagttcatactcagttttactgcagatgttaagtcaagaaagtatctcactt-tagttcatcaagtg---

upper sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 8
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattattgtctgtgttgctgtgctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat
|||| ||||| || || ||  | || ||||| |||||||| |||||||||||||| ||||||||||| || || || |||||| | ||||| || || ||||      ||   ||||||   | | || ||            ||  || |  |  |||  |                                      
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgta---ctgccgacttcatctaagtcttttcca----atcaaacttacattactccaaacag--------------------------------------

upper sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 8
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattattgtctgtgttgctgtgctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat
|||| ||||| || || ||  | || ||||| |||||||| |||||||| ||||| ||||||||||| || || || |||||| | ||||| || || ||||      ||   ||||||   | | || ||            ||  || |  |  |||  |                                      
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgta---ctgccgacttcatctaagtcttttcca----atcaaacttacattactccaaacag--------------------------------------

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|352781883|gb|FQ469180.1|FQ469180
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|22014898|gb|BQ799932.1|BQ799932
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|161712408|gb|FC061713.1|FC061713
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|110722901|gb|EE099603.1|EE099603
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|71877945|gb|DT027000.1|DT027000
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|33404512|gb|CF210139.1|CF210139
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|110391747|gb|EC956746.1|EC956746
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|32247872|gb|CD713691.1|CD713691
EST:     GAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|32246398|gb|CD712217.1|CD712217
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|32246414|gb|CD712233.1|CD712233
EST:     GATGGGTTTGATGCTCGAGGAAATTTCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|71878819|gb|DT027874.1|DT027874
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|46917703|gb|CN547032.1|CN547032
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|22013526|gb|BQ798560.1|BQ798560
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|110382613|gb|EC946924.1|EC946924
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|33404439|gb|CF210066.1|CF210066
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|32272322|gb|CD721481.1|CD721481
EST:     GAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|110381975|gb|EC938156.1|EC938156
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
EST: gi|27586753|gb|CB009448.1|CB009448
EST:     GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAG                         GCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA
genomic: GATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggc ... cattttacagGCCTGACACACTTGATCCAGCACTGTTACGCCCTGGACGGTTAGACCGCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattattgtctgtgttgctgtgctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttagaaa