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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaaaatcacaaattcttctttcatttccctctcatctcatcgttttctctaattctgggagccaaagtaatgactgtgacggtttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTACGATAGTGTCGGATTCGTGCCACAGCGGTGGCCTGATCGATGAGGCTAA

Basic information

species Vitis vinifera
transcript Vv19s0085g01030.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g01030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ28570 (Selaginella moellendorffii), 3'ss of exon 1
gtcaaaatcacaaattcttctttcatttccctctcatctcatcgttttctctaattctgggagccaaagtaatgactgtgacggtttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTACGATAGTGTCGGATTCGTGCCACAGCGGTGGCCTGATCGATGAGGCTAA
                                         |    |      ||  |      |    |||  |||       | |  ||  |||||| |||||| |    || || |||||| | |||||||| ||||| || ||| | || |||||||||||||||||||||||  |||||||  | || ||
----------------------------------------gtaagatcgatcgatcgttatcatcttgataaaaacttgatttttcttgttctagATGATGATTTCCGCGACTTGGTTGACAAGCTCCCGGAGGGATGCCGGATCACGCTCGTCTCGGATTCGTGCCACAGCGGTGGATTGATCGAGAATGCCAA

upper sequence: Vv19s0085g01030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ20498 (Selaginella moellendorffii), 3'ss of exon 1
gtcaaaatcacaaattcttctttcatttccctctcatctcatcgttttctctaattctgggagccaaagtaatgactgtgacggtttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTACGATAGTGTCGGATTCGTGCCACAGCGGTGGCCTGATCGATGAGGCTAA
                                    |   || ||| |  ||  |  |  |   |    |||  |||       | |  ||  |||||| |||||| |    || || |||||| | |||||||| ||||| || ||| | || |||||||||||||||||||||||  |||||||  | || ||
-----------------------------------gtaagatagttcttcct--tcgttagcatcttgataaaaacttgatttttcttgttctagATGATGATTTCCGCGACTTGGTTGACAAGCTCCCGGAGGGATGCCGGATCACGCTCGTCTCGGATTCGTGCCACAGCGGTGGATTGATCGAGAATGCCAA
















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|37188481|gb|CF607830.1|CF607830
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|161705965|gb|FC054896.1|FC054896
EST:     CATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|161721224|gb|FC070730.1|FC070730
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|351029453|gb|FQ436847.1|FQ436847
EST:     CACCGGCTACGACAAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|110686229|gb|EE063639.1|EE063639
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|110692447|gb|EE071701.1|EE071701
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|110374997|gb|EC939948.1|EC939948
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|161713499|gb|FC064052.1|FC064052
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|161706169|gb|FC055400.1|FC055400
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTG
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTG
EST: gi|37188390|gb|CF607739.1|CF607739
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgttttctctaattctgggagccaaagtaatgactgtgacggtttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTACGATAGTGTCGGATTCGTGCCACAGCGGTGGCCTGATCGATGAGGCTAA
        ctctaat  putative branch site (score: 3)
                                            tttgttttc  putative PPT
                         aaagtaat  TA-rich tract