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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttgatttctacagatgtaggtttgcagatccccatctttaattctatgctaaattctttaaatgtatgtggataatgcagTTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGAAAGCGTGGGGACTTAGCATTCCGTGACAAAGATTTTAAAACAGCCATAG

Basic information

species Vitis vinifera
transcript Vv18s0001g00180.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os10g39670.1 (Oryza sativa), 3'ss of exon 7
------------------------gtacttgatttctacagatg-taggtttgcagatccccatc------tttaattctatgctaaattctttaaatgtatgtggataatgcagTTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGAAAGCGTGGGGACTTAGCATTCCGTGACAAAGATTTTAAAACAGCCATAG
                        |  |     || |  || || | ||  | | | ||||  ||      |||  | |||||   |  | | |||||   | |      ||||| ||||||||||||||||||| ||||| |||||||||||| | || || || || ||||| || || ||||| || |||||| |||| ||   ||||||||
gtaaagacaatatagagcactgtggctccactcttttctagctggttgggatactggtccctctcgactgttttcttcctatggggacgtgtctaaattgttctcctctctgcagCTATCTTTCCAAGAATGGACTCAACAGATGAGAGATATGTTGGATGCTAGGAAACGTGGTGATTTTGCATTTCGAGACAAAAATTTCAAGCAAGCCATAG

upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g04050.1 (Oryza sativa), 3'ss of exon 7
----gtacttg---atttctacagatgtaggtttgcagatccccatctttaattctatgctaaattctttaaatgtatgtggataatgcagTTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGAAAGCGTGGGGACTTAGCATTCCGTGACAAAGATTTTAAAACAGCCATAG
     || | |   | ||  |    |||    | |||||||    |||   |    |  |||   ||| |  ||  || |   |  ||||| |||| ||||| |||||||| || || ||||| |||||| | || || || || ||||| ||||| || || ||||| ||||||||||| ||||||||||
gtaaatattggagcactttgatttctgtcatatggcagatcgttgtctaaga----aatcta---tctcttcatcaatctccctgttgcagCTATCGTTCCAGGAATGGACTCAGCAGATGAGGGATATGTTAGATGCTAGGAAACGTGGAGACTTTGCGTTTCGTGATAAAGATTTTAAGACAGCCATAG

upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 7
gtacttgatttctacagatgtaggtttgcagatccccatctttaattctatgctaaattctttaaatgta-tgtggataatgcagTTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGAAAGCGTGGGGACTTAGCATTCCGTGACAAAGATTTTAAAACAGCCATAG
|||   ||      ||  | |     ||| |    |   |||     |   |    ||     |||     ||    ||  |||| |||| ||||| |||||||| || || ||||| || ||||| || || || || ||||||||||| || ||||||||||||||||| ||  |||||||||
gtaaaagaccagagcatttctgttgctgctgcctgctggcttctccacagggtactatctaagaaaaacggtgcctctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGGAAACGTGGGGACTTTGCTTTCCGTGACAAAGATTTCAAGGCAGCCATAG

upper sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G026767_T01 (Zea mays), 3'ss of exon 6
gtacttgatttctacagatgtaggtttgcagatccccatctttaattctatgctaaattctttaaatgtatgtggataatgcagTTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGAAAGCGTGGGGACTTAGCATTCCGTGACAAAGATTTTAAAACAGCCATAG
|||    |   |     |    ||||  |  |||  ||| ||   |   |      |  |    |   | | |  ||  ||||| | ||||| |||||||||||||| || ||||| |||||||| || ||||| || ||||| ||||  || |||   ||||||||||||||  |||| || |
gtaaaataaaccagtgcactctggtt--ccaatcttcatgttctgtaggacctctgaaaccagcatcat-tctccattctgcagCTGTCTTTTCAAGAATGGACACAGCAGATGAGGGATATGCTGGATGCAAGGAAACGTGGCGACTCTGCCTTCAAAGACAAAGATTTTAAGGCAGCAATCG

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|34362345|gb|CF403930.1|CF403930
EST:     TAAAGATGATGAAGGAACCAATGAG                         TTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGA
genomic: TAAAGATGATGAAGGAACCAATGAGgtacttgatt ... gataatgcagTTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGA
EST: gi|22012691|gb|BQ797725.1|BQ797725
EST:     ATCAGATTTTAGTAATGACACACTATAAAGATGATGAAGGAACCAATGAG                         TTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGA
genomic: ATCAGATTTTAGTAATGACACACTATAAAGATGATGAAGGAACCAATGAGgtacttgatt ... gataatgcagTTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGA
EST: gi|34543647|gb|CF511879.1|CF511879
EST:     ATCAGATTTTAGTAATGACACACTATAAAGATGATGAAGGAACCAATGAG                         TTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGA
genomic: ATCAGATTTTAGTAATGACACACTATAAAGATGATGAAGGAACCAATGAGgtacttgatt ... gataatgcagTTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatccccatctttaattctatgctaaattctttaaatgtatgtggataatgcagTTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGAAAGCGTGGGGACTTAGCATTCCGTGACAAAGATTTTAAAACAGCCATAG
                     tgctaaa  putative branch site (score: 2)
           tttaattctatgctaa  TA-rich tract