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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttacatcaaaccccagctaattatgattaagattatgtgattatgtatgatgaattgtatgtaaaaggttagaaagaaagccatgctgatatttgatcaattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACCGGAAGTACCCAAACGGGGCTCGGCCTAATCGAGCGGCGACTTCTGGTTA

Basic information

species Vitis vinifera
transcript Vv19s0014g03300.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g03300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os07g37920.1 (Oryza sativa), 3'ss of exon 1
gtaacttacat---caaaccccagctaattatgattaagattatgtgattatgtat-gatgaattgtatgtaaaaggttagaaagaaagccatgctgatatttgatcaattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACCGGAAGTACCCAAACGGGGCTCGGCCTAATCGAGCGGCGACTTCTGGTTA
 || |||  ||    |   | |     ||   |||   |||     |||   || | | | | |||| |||   |  |  |   |     |||||     ||||      | ||||  ||||| |  || || || ||||| ||||| ||||||||||| || ||||| |||||||| |||||||| ||||| || || |||||||| || || ||
-tagcttggatgtgtagtgctcgatcgatc--gatc--gatcgatcgatctggtgtcgtttacttgtttgtgcgatttatgcgtg-----catgcatcggtttg------tatcagAGAAGGCGAACTTCGGGGAGCAGGAGTGGTATTTCTTCAGCCCGAGGGACCGCAAGTACCCGAACGGGGCGCGGCCGAACCGGGCGGCGACGTCGGGGTA

upper sequence: Vv19s0014g03300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G179885_T04 (Zea mays), 3'ss of exon 2
gtaacttacat-caaaccccagctaattatgattaagattatgtgattatgtatgatgaattgtatgtaaaaggttagaaagaaagccatgctgatatttgatcaattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACCGGAAGTACCCAAACGGGGCTCGGCCTAATCGAGCGGCGACTTCTGGTTA
     || ||| || ||  |        |||  |     |   | | ||| | | | | | ||| ||      |       || |  |||| |   ||    |  ||   ||| |||||| |  || || || ||||| ||||||||||||||||| || ||||| |||||||| ||||| || ||||| ||  | |||||||| || || ||
---ctttgcatacatactgctagcttccatgcatgcatgtgccttactat-tctcacgcactgtgtg------gccgcctggacatgcatggttggatactctggat---cagATAAGGCGACATTCGGCGAGCAGGAGTGGTACTTCTTCAGCCCGAGGGACCGCAAGTACCCCAACGGAGCGCGGCCGAACAGGGCGGCGACGTCCGGCTA

upper sequence: Vv19s0014g03300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G52880.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaacttacatcaaaccccagctaattat--gattaagattatgtgattatgtatgatgaattgtatgtaaaaggttagaaagaaagccatgctgatatttgatcaattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACCGGAAGTACCCAAACGGGGCTCGGCCTAATCGAGCGGCGACTTCTGGTTA
|||| ||  | |||  || || | || ||  ||| |    | | | ||| | | |  | | |  | | |      ||             || |     |||||    |  |||| || ||    ||||||||||| |||||||| || ||||| || ||||| ||||| || || ||||| ||| | ||||| ||||| |||||||| |||||
gtaagttgaaacaagaccaagatcataatccgatcagatctgtttcattttttttttt-actgatttttgttttttt----------ttgtgtt----cttgattg--tgacagCGAAAGCTTCGTTTGGAGAACAAGAATGGTATTTTTTCAGTCCAAGAGATCGGAAATATCCCAACGGAGCTAGACCTAACCGAGCTGCGACTTCCGGTTA

upper sequence: Vv19s0014g03300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G15510.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------------------gtaacttacatcaaaccccagctaatt---atga--ttaagattatgtgattatgtatgatgaattgtatgtaaaag----gttagaaagaaagccatgctgatatttga--tcaattct--cagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACCGGAAGTACCCAAACGGGGCTCGGCCTAATCGAGCGGCGACTTCTGGTTA
                                      |   ||| ||  |     |  | |||   ||||  ||  ||   | |  ||   ||||||||  |  || |          ||    | ||     |  || | | ||   ||  || |  ||||||| ||    ||||||||||| |||||||||||||| || ||  |||| |||||||| |||||||| ||  | || ||  ||||||||||||| |||||
gtacgtacgacctcatcatcatcatcatcaacaactacttttttatatatagtattatttgatttatatgaatttgtgaccttttttttggttatgatgatctaaatctttttcttcttttttctataatttttttttggtttgtggattcgtttgttgcagCTAAAGCATCGTTTGGAGAACAAGAATGGTACTTCTTTAGTCCACGAGATCGGAAGTATCCAAACGGAGCAAGACCAAACAGAGCGGCGACTTCAGGTTA

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|110698654|gb|EE076400.1|EE076400
EST:     CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCTG                         CTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
genomic: CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCCGgtaacttaca ... caattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
EST: gi|30133635|gb|CB918974.1|CB918974
EST:     CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCTG                         CTAAGGCTAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
genomic: CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCCGgtaacttaca ... caattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
EST: gi|110724037|gb|EE099512.1|EE099512
EST:     CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCTG                         CTAAAGCTAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
genomic: CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCCGgtaacttaca ... caattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
EST: gi|30130874|gb|CB916213.1|CB916213
EST:     CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCTG                         CTAAGGCTAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
genomic: CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCCGgtaacttaca ... caattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
EST: gi|110709962|gb|EE085891.1|EE085891
EST:     CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCTG                         CTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
genomic: CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCCGgtaacttaca ... caattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
EST: gi|26264640|gb|CA815703.1|CA815703
EST:     CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCCG                         CTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC
genomic: CATAATCGCAGAGGTTGATCTCTATAAGTTTGATCCCTGGGAACTCCCCGgtaacttaca ... caattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgtatgtaaaaggttagaaagaaagccatgctgatatttgatcaattctcagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACCGGAAGTACCCAAACGGGGCTCGGCCTAATCGAGCGGCGACTTCTGGTTA
                                                ttctc  CT-rich tract
                                    atatttgatcaatt  TA-rich tract