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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgcttaatcctcctgtggttcatttgtgactcaatttgtttatttcctcaacttataaatttctatatcatttttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGGTCCAAACAAGTTGAAATAG

Basic information

species Vitis vinifera
transcript Vv03s0038g00460.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G04210.1 (Glycine max), 3'ss of exon 2
--------gttgcttaatcc---tcctgtggtt-catttgtgac-----tcaatttgt---ttatttcctcaacttat-aaatttctatatc--att----tttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGGTCCAAACAAGTTGAAATAG
        |||  || ||     | || || || ||||| |        || |||| |   || |  |||   || || | |  || | |||  |||    |||||||||| |||||||||||||||||||||||||||||||| ||| |||||||| ||||| ||||| |||||||
gttacctggttctttgatttcaattctttgttttcatttatagttgatgtcgatttatcccttctcccctaggctgatcatagctccaaatccaattgtgttttcagCATTATCAAAGGGATATTGTTCGTGGTGTAGAAGGTTATATTGTTACTGGATCCAAGCAAGTGGAAATAG

upper sequence: Vv03s0038g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G11950.3 (Glycine max), 3'ss of exon 2
--------gttgcttaatcc----tcctgtggttcatttgtgactca-----atttgt---ttatttcctcaacttataa-atttctatatcatttttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGGTCCAAACAAGTTGAAATAG
        |||  || ||      || | |  ||||||| |   |||     |||| |   || |  ||| | || |||| |  || |  |    |||||||||| |||||||||||||||||| ||||||||||||| ||| ||||| |||||||| ||||| |||||||
gtgacttggttctttgatttcaattcttttttttcatttatagttcatgtcgatttatcccttctcccctaagctgataatagctccaattgtggtttcagCATTATCAAAGGGATATTGTTCGAGGTGTAGAAGGTTATATTGTTACCGGGTCCAAGCAAGTGGAAATAG

upper sequence: Vv03s0038g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G01100.2 (Glycine max), 3'ss of exon 2
gttgcttaatcctcctgtggttcatttgtgactcaatttgtttatttcctcaacttataaatttc--------------------tatatcatttttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGGTCCAAACAAGTTGAAATAG
||| |||  |  | ||||   |    | |   |   ||||| | || |||| ||||||    | |                    |||||  |||||||||||| ||||||||||||||| |||||||| ||||||| ||| || ||||| ||||| |||||||||||||
gttacttggtttttctgtacctaccctctatttttgtttgtgttttacctccacttatgctctccctgtttggctgataatgaaatatattgtttttcagCATTATCAAAGGGATATTGTCCGTGGTGTGGAAGGTTATATTGTAACTGGATCCAAGCAAGTTGAAATAG

upper sequence: Vv03s0038g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G01120.2 (Glycine max), 3'ss of exon 2
-------------gttgcttaatcctcctgtggttcatttgtgactcaa-tttgtttatttcctc-------aacttataaatttctatatcatttttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGGTCCAAACAAGTTGAAATAG
               ||    | ||  || |  ||  ||||||  | |  | |  ||||  ||||         || ||||     |||||  |||||||||||| ||||||||||||||| || ||||| ||||||| ||| || ||||| ||||| |||||||||||||
gttaattggtttttctgtaccaaccctctatt-tttgtttgtgttttatctctacttataccctccctgtttggctgataatgaaatatattgtttttcagCATTATCAAAGGGATATTGTCCGCGGTGTGGAAGGTTATATTGTAACTGGATCCAAGCAAGTTGAAATAG

upper sequence: Vv03s0038g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 2
gttgcttaatcctcctgtggttcatttgtgactcaatttgtttatttcctcaacttataaatttctatatcatt---tttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGGTCCAAACAAGTTGAAATAG
      |  |  | ||   | |  |   |   |  |  | || ||| |      || |  | |  |   |  ||   ||||||||||  ||||| ||||||||||||||||| ||||||| ||| ||||| ||||| ||||||||||||||||
-----gttgtttttcttaagcttttgactagtttgaagttttgattactattgattttggactcattcgttcttcgttttcagCATTACCAAAGAGATATTGTTCGTGGTGTGGAAGGTTATATAGTTACAGGGTCAAAACAAGTTGAAATAG

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|351024745|gb|FQ430570.1|FQ430570
EST:     AGCAGCATCAGAAACTTGAAAAGCTTTACATATCAACACGTGCTGGAAAG                         CATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGG
genomic: AGCAGCATCAGAAACTTGAAAAGCTTTACATATCAACACGTGCTGGAAAGgttgcttaat ... catttttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGG
EST: gi|351035615|gb|FQ463460.1|FQ463460
EST:     AGCAGCATCAGAAACTTGAAAAGCTTTACATATCAACACGTGCTGGAAAG                         CATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGG
genomic: AGCAGCATCAGAAACTTGAAAAGCTTTACATATCAACACGTGCTGGAAAGgttgcttaat ... catttttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGG
EST: gi|349826387|gb|FQ417884.1|FQ417884
EST:     AGCAGCATCAGAAACTTGAAAAGCTTTACATATCAACACGTGCTGGAAAG                         CATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGG
genomic: AGCAGCATCAGAAACTTGAAAAGCTTTACATATCAACACGTGCTGGAAAGgttgcttaat ... catttttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGG
EST: gi|351023475|gb|FQ432858.1|FQ432858
EST:     AGCAGCATCAGAAACTTGAAAAGCTTTACATATCAACACGTGCTGGAAAG                         CATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGG
genomic: AGCAGCATCAGAAACTTGAAAAGCTTTACATATCAACACGTGCTGGAAAGgttgcttaat ... catttttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGG
EST: gi|351040290|gb|FQ425376.1|FQ425376
EST:     AGCAGCATCAGAAACTTGAAAAGCTTTACATATCAACACGTGCTGGAAAG                         CATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGG
genomic: AGCAGCATCAGAAACTTGAAAAGCTTTACATATCAACACGTGCTGGAAAGgttgcttaat ... catttttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgactcaatttgtttatttcctcaacttataaatttctatatcatttttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGGTCCAAACAAGTTGAAATAG
                                            tcatttttc  CT-rich tract
                        tcaacttataaatttc  TA-rich tract