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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttaattttttagagccttttcaagtttatccttttatgctgcctataaaaaaaggtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG

Basic information

species Vitis vinifera
transcript Vv06s0004g01090.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G017835_T01 (Zea mays), 3'ss of exon 6
-------------------gtaagtta-attttttagag---------ccttttcaagtttatccttttatgctgcctataaaaaaaggtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG
                    ||| ||  ||||||| | |         || ||||   ||| | ||    | |||    |  | |    |   || ||| ||    || | |  ||  || | |   |||   | | |  |||||||||||||||| || | |||||||||||||||||||   |||||||| || ||||||   |||||
gtaaacaagactgttccaattaacttgcatttttttgtgaaattgtccccctttcttatttctgctagattactggtggtctagagcattaggtcttttgatcagcttaacagcttctttgtta---attttcact-tgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAACGTCCTGATGCCTTTAG

upper sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G47680.2 (Glycine max), 3'ss of exon 7
gtaagttaattttttagagccttttcaagtttatccttttatgctgcctataaaaaaaggtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG
    |||| |  ||    ||  ||  | | | || | |||          ||        ||||  || |    | ||||  |  ||| | || || |   | || | ||||||||||||||||||| ||||   | | |||||||||||||||||||||||| || ||||||||||||||
----gttagtagtt----gcaattcaaggatgatgcattt----cattcgta--------tttacactct----cctttttgacctttctcat-ataagcacgtatt-ttgcagCAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGTCCTGATATGTTTAG

upper sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 7
gtaagttaattttttagagccttttcaagttt--atccttttatgctgcctataaaaaaaggtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG-
                      ||   |||||  || |    ||| ||| | | |       || ||  |   |  | ||||  |  ||| | || || |     |  | || |||||||||||||||| ||||   | | |||||||||||||||||||||||| || |||||||||||||| 
----------------------ttagtagtttcaattcaaggatgatgcatttca-------ttcatattcacactcctttttgacctttctcat-ataagcatgtgttttt-cagcAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGG

upper sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G38770.1 (Glycine max), 3'ss of exon 7
gtaagttaattttttagagccttttcaagtttatccttttatgctgcctataaaaaaaggtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG
                            ||   |   | ||   |   | ||||      |||    |||  | ||| | |     ||  ||  ||    ||||  |  | |||||||||| ||||| ||||   | | ||| ||||||||||| |||||||| || ||||||||||||||
----------------------------gtcagttgatgtaatttaagtttaaatgtgcatttgaggtttctttcttgtgaatcccttcataatatgtgctcatgtttct-cagCAACAAAATGGAGAGACACCTCCAGTGGACAGCATGTTGACTATGATCAACGCCCTGATATGTTTAG

upper sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagttaattttttagagccttttcaagtttatccttttatgctgcctataaaaaaaggtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG
                            ||| ||   || || ||   | | |     | |   | ||| | | | |||   ||||||      | ||| |       || |||| ||||||||||| ||  ||| ||  || || ||||||||||||||||| || ||||||||||||||
----------------------------gttgat---ttcattctctttgttattcttgctaggttcttctttacctttctcattttt----caaccaact-------tttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG

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|161715152|gb|FC063639.1|FC063639
EST:     GCCATCTACAACACAAGAGAAGAAGTTGTTTCTTGTTGACCTTGGATTAG                         CAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGC
genomic: GCCATCTACAACGCAAGAGAAGAAGTTGTTTCTTGTTGACCTTGGATTAGgtaagttaat ... aatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGC
EST: gi|34543792|gb|CF512024.1|CF512024
EST:     CAAGAGAAGAAGTTGTTTCTTGTTGACCTTGGATTAG                         CAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGC
genomic: CAAGAGAAGAAGTTGTTTCTTGTTGACCTTGGATTAGgtaagttaat ... aatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGC
EST: gi|161716446|gb|FC068431.1|FC068431
EST:     GCCATCTACAACACAAGAGAAGAAGTTGTTTCTTGTTGACCTTGGATTAG                         CAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGC
genomic: GCCATCTACAACGCAAGAGAAGAAGTTGTTTCTTGTTGACCTTGGATTAGgtaagttaat ... aatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG
                tttttatatttttgtt  TA-rich tract