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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttgatttgtatggagctggtaccctatgatgttctaaaaactgtcactaaccaatatacttttgcttcattatgtagGCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTTTTCCGTGACACAGACTCGACAGAATTTGTCATAGTAACAATCCCTACG

Basic information

species Vitis vinifera
transcript Vv13s0019g04590.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g04590.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G32200.1 (Glycine max), 3'ss of exon 8
gtaagtttgatttgtatggagctggtaccctatgatgttctaaaaactgtcactaaccaatatacttttgcttcattatgtagGCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTTTTCCGTGACACAGACTCGACAGAATTTGTCATAGTAACAATCCCTACG
||||| || ||  |  ||||| | |||     |   |||  |       |   | |||| | || | |  ||| ||| |||||||||||||||| |||  ||| || ||||| ||| |||||||||| || || || ||||| || || ||||| ||||||||||| || |||||||| |||
gtaagatttat--gcctggagttagtattgcgtttagtttcatct-taattgttcaccatt-tattatatctttattgtgtagGCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTCTTTCGTGATACTGATTCGACCGAATTTGTCATTGTTACAATCCCCACG

upper sequence: Vv13s0019g04590.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G35320.1 (Glycine max), 3'ss of exon 8
gtaagtttgatttgtatggagctggtaccctatgatgt--tctaaaaactgtcactaaccaatatacttttgcttcattatgtagGCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTTTTCCGTGACACAGACTCGACAGAATTTGTCATAGTAACAATCCCTACG
||||| || ||   | | |     ||  | | |  | |  ||| || |   |||| |     ||||   ||     ||| || ||||||| ||||| |||  ||| |||||||| ||| |||||||||| || || || ||||| || || || || ||||||||||| || |||||||| |||
gtaagatttatacctgtagtcactgttgcgtttagtttcatcttaatatgttcaccatttgttatatcatt----tattgtgcagGCTGATAAATTGGAGAAACTCAGGGAGAGGATGATAAAAGTGCGTGAACTCTTTCGTGATACTGATTCAACCGAATTTGTCATTGTTACAATCCCCACG

upper sequence: Vv13s0019g04590.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G10350.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaagtttgatttgtatggagctggtaccctatgatgttctaaaaactgtcactaaccaatatacttttgcttcattatgtagGCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTTTTCCGTGACACAGACTCGACAGAATTTGTCATAGTAACAATCCCTACG
|||||| |  | |  || | |||| ||     |  | |||         |   |    || ||  | ||  |  ||     |||| |||||||| ||   |||||| || || ||||| ||||| || |||||||||||||||||||| || |||||||| ||||| || || ||||| |||
gtaagtctt-tgtacattg-gctgata-----tagtattcctgttttcatt--tggttaaaattttctttatggatgtcacagGCCGACAAATTGGAAAAACTAAGAGAAAGGATGGTTAAAGTTCGCGAGCTTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACG

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|27578838|gb|CB001533.1|CB001533
EST:     CTTCAGCCATCAAATCTGTTTTTGGACAAGAAGAAACCCGGCAGGATGCT                         GCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTT
genomic: CTTCAGCCATCAAATCTGTTTTTGGACAAGAAGAAACCCGGCAGGATGCTgtaagtttga ... cattatgtagGCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTT
EST: gi|349822994|gb|FQ399973.1|FQ399973
EST:     CTTCAGCCATCAAATCTGTTTTTGGACAAGAAGAAACCCGGCAGGATGCT                         GCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTT
genomic: CTTCAGCCATCAAATCTGTTTTTGGACAAGAAGAAACCCGGCAGGATGCTgtaagtttga ... cattatgtagGCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctatgatgttctaaaaactgtcactaaccaatatacttttgcttcattatgtagGCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTTTTCCGTGACACAGACTCGACAGAATTTGTCATAGTAACAATCCCTACG
                      cactaac  putative branch site (score: 1)
                                    cttttgcttc  putative PPT
                              aatatactttt  TA-rich tract