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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaataatctatgtttcagaaacacttgttcaattagtacttgctgctgtgttagtttataaaatgaagttgaactaagtatgattaatgcagATATCTCGCACCAAGACCAGCAACACTGTTCCGGAATCGACTTTGCATTGATGGGGGTTTGACATTGTTTATGCCCCCAACATCCGCTTCTCAGACG

Basic information

species Vitis vinifera
transcript Vv12s0034g01170.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0034g01170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G05300.2 (Glycine max), 3'ss of exon 4
gtaaataatctatgtttcagaaacacttgttcaattagtacttgctgct-gtgttagtttataaaatgaagttgaactaagtatgattaatgcagATATCTCGCACCAAGACCAGCAACACTGTTCCGGAATCGACTTTGCATTGATGGGGGTTTGACATTGTTTATGCCCCCAACATCCGCTTCTCAGACG
|| | |  |   | |   | |     ||| |    |   | ||  | || ||  ||  || | |||| || || ||   |   |   || | ||||||||| |||||||| ||||||||  |||| ||||||||||| |||||||||||||||||||||||||||||||| || ||||| ||| | || |||
gtgatttgttagtataatatatttcattggttgcatgcgattttttacttgttataaatttttaaataaatttaaaactaactta--tactccagATATCTTGCACCAAGGCCAGCAACGATGTTTCGGAATCGACTATGCATTGATGGGGGTTTGACATTGTTTATGCCACCGACATCTGCTGCACAAACG

upper sequence: Vv12s0034g01170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G19720.1 (Glycine max), 3'ss of exon 4
-------gtaaataatctatgtttcagaaacacttgttcaattagtacttgctgctgtgttagtttataaaatgaagttgaactaagtatgattaatgcagATATCTCGCACCAAGACCAGCAACACTGTTCCGGAATCGACTTTGCATTGATGGGGGTTTGACATTGTTTATGCCCCCAACATCCGCTTCTCAGACG
       || | ||  |||| |||||            | |||| |  || ||  |||  ||  || | |||| || || ||  |  ||    || | ||||||||| |||||||| ||||||||| |||| || |||||||| ||||||||||| |||||||||||||||||||| || ||||| ||| | || |||
gtgatttgttagtatactatatttcattggt-tgcacgcgattatt--ttact--tgttataaatttttaaataaatttaaa--acttacttatactccagATATCTTGCACCAAGGCCAGCAACAATGTTTCGTAATCGACTATGCATTGATGGTGGTTTGACATTGTTTATGCCACCGACATCTGCTGCACAAACG

upper sequence: Vv12s0034g01170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G33270.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaataatctatgtttcagaaacacttgttcaattagtacttgctgctgtgttagtttataaaatgaagttgaactaagt--atgattaatgcagATATCTCGCACCAAGACCAGCAACACTGTTCCGGAATCGACTTTGCATTGATGGGGGTTTGACATTGTTTATGCCCCCAACATCCGCTTCTCAGACG
                | |   || ||  | |  ||   |||| | | |      |   | ||||        | |  | |  |  |  ||||||||||||| |||||||| || |||||| ||||||| |||||||||||  ||||||| || ||||||||||||||||| |||||| | ||| || | || 
---------------gtaaatcactctcttgcttttgaaactttcagtttatccggaaaacaaaactttaacaaccagaattaaaaacaaatgcagATATCTTGCACCAAGGCCTGCAACAATGTTCCGTAATCGACTTTGTGTTGATGGAGGCTTGACATTGTTTATGCCACCAACAGCTGCTGCTAAAACA

upper sequence: Vv12s0034g01170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G33270.2 (Arabidopsis thaliana), 3'ss of exon 4
gtaaataatctatgtttcagaaacacttgttcaattagtacttgctgctgtgttagtttataaaatgaagttgaactaagt--atgattaatgcagATATCTCGCACCAAGACCAGCAACACTGTTCCGGAATCGACTTTGCATTGATGGGGGTTTGACATTGTTTATGCCCCCAACATCCGCTTCTCAGACG---
                | |   || ||  | |  ||   |||| | | |      |   | ||||        | |  | |  |  |  ||||||||||||| |||||||| || |||||| ||||||| |||||||||||  ||||||| || ||||||||||||||||| |||||| | ||| || | ||    
---------------gtaaatcactctcttgcttttgaaactttcagtttatccggaaaacaaaactttaacaaccagaattaaaaacaaatgcagATATCTTGCACCAAGGCCTGCAACAATGTTCCGTAATCGACTTTGTGTTGATGGAGGCTTGACATTGTTTATGCCACCAACAGCTGCTGCTAAAACAGTA

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|110375680|gb|EC940690.1|EC940690
EST:     TCCAAAGAGGATCTCATCAATGCAGTGTTCACTTCTTCCTTCATTCCAGG                         ATATCTCGCACCAAGACCAGCAACACTGTTCCGGAATCGACTTTGCATTGA
genomic: TCCAAAGAGGATCTCATCAATGCAGTGTTCACTTCTTCCTTCATTCCAGGgtaaataatc ... attaatgcagATATCTCGCACCAAGACCAGCAACACTGTTCCGGAATCGACTTTGCATTGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgctgctgtgttagtttataaaatgaagttgaactaagtatgattaatgcagATATCTCGCACCAAGACCAGCAACACTGTTCCGGAATCGACTTTGCATTGATGGGGGTTTGACATTGTTTATGCCCCCAACATCCGCTTCTCAGACG
                                            gattaat  putative branch site (score: 3)
             ttagtttataaaatga  TA-rich tract