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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaacttatctttctatgcatatattatttctaatggattactgagcacagccacatattatcagtctgtatagatagattcctgctaacttaatccaatggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAGTACCTCTGCATAGGACGCTTCTCAGCAGTTTCCTTCCAGGTTTTAGGTC

Basic information

species Vitis vinifera
transcript Vv18s0122g00090.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0122g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os07g39280.1 (Oryza sativa), 3'ss of exon 4
gtaagaacttatctttctatgcatatattatttctaatggattactgagcacagccacatattatcagtctgtatagatagattcctgctaacttaatccaatggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAGTACCTCTGCATAGGACGCTTCTCAGCAGTTTCCTTCCAGGTTTTAGGTC
         | | ||  |    ||  | |  | ||  | | ||    |   |  |     ||| | |     | |   ||    | |||||  |||||  ||   | ||||||| |||||| | ||||| |||||| | || || ||||||||  ||||||||||||||||||| || || ||||| |||  ||| ||||||||  | || |
-------tctgttttaatcattatgcacttctccttgttgctttaatactcctactgggaattcttaaaacatgttc-taacaacttgctatgttaat--aac--tctgcagTTCTTCATATTGCTTTCTTGCTCCTTGGCTGTCTTCTGCAACATGAGCCAGTACCTCTGCATCGGCCGGTTCTCTGCAACTTCGTTCCAGGTCCTGGGCC

upper sequence: Vv18s0122g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AC194970.5_FGT005 (Zea mays), 3'ss of exon 4
-gtaagaacttatctttctatgcatatattatttctaatggattactgagcacagccacatattatcagtctgtatagatagattcctgctaacttaatccaatggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAGTACCTCTGCATAGGACGCTTCTCAGCAGTTTCCTTCCAGGTTTTAGGTC
 | | ||   |     |  |||||||| |  | |  || | ||||    |    |  ||  |      |  |||||      |   ||      ||||||      | ||||||| |||||||| ||||| |||||||| || |||||||||||  ||||||| ||||||||||| || || ||||||||    || ||||||||  | || |
cgaatgataatgaacgtagatgcatatttagtctaaaacgaattat---gttttgggacgga------gagtgtatgatctaaccgcttaccttttaatc----attctgcagTTCTTCATACTGCTTTCCTGCTCCCTGGCGGTGTTCTGCAACATGAGCCAATACCTCTGCATCGGGCGGTTCTCAGCGACCTCATTCCAGGTCCTGGGCC

upper sequence: Vv18s0122g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G055216_T01 (Zea mays), 3'ss of exon 4
-gtaagaactt-atctttctatgcatatattatttctaatggattactgagcacagccacatattatcagtctgtatagatagattcctgctaacttaatccaatggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAGTACCTCTGCATAGGACGCTTCTCAGCAGTTTCCTTCCAGGTTTTAGGTC
  |||   ||| ||      ||| |   |  || | |   | | |  |||   |||| ||| || |  |||   ||   ||       ||||  |||  |  || | | ||||||| |||||  | ||||| |||||||| || || ||||||||  ||||||| ||||||||||| || || ||||||||    || || |||||  | || |
cttaatttcttgattgccaaatgtaagcaaaatgtttgtagcagt--tgattgcagctacaaatga--agt---tactcatta-----tgctccctt--ttaaacgttttgcagTTCTTCATCTTGCTTTCCTGCTCCCTGGCCGTCTTCTGCAACATGAGCCAATACCTCTGCATCGGCCGGTTCTCAGCGACCTCGTTTCAGGTCCTGGGCC

upper sequence: Vv18s0122g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G00210.2 (Glycine max), 3'ss of exon 4
gtaagaac-ttatctttctatgcatatattatttctaatggattac-tgagcacagccaca-tattatcagtctgtatagatagattcctgctaacttaatcca-atggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAGTACCTCTGCATAGGACGCTTCTCAGCAGTTTCCTTCCAGGTTTTAGGTC
|||||  | || ||   ||||  | |  |  | | | ||    |   ||     | |   | |  ||  | |     | |||  |||| |   || ||  ||   |   | ||||||| ||||| || ||||||||||| ||||| || || |||||||||||||| ||||| ||||| || ||||| ||||| |||||||||||||||||||| |
gtaagttccttttccccctattgaca-gtagtcttttatatcctgtgtgtatttatctttaattatacaaatactgttggattaattcttttaaattttttctttaatatctgcagTTATTCATTCTTCTTTCATGCTCGCTAGCTGTATTTTGCAATGTGAGCCAATACCTTTGCATTGGGCGCTTTTCAGCTGTTTCCTTCCAGGTTTTAGGCC

upper sequence: Vv18s0122g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 4
gtaaga-acttatctttctatgcatatattatttctaatggattactgagcacagccacatattat-cagtctgtatagatagattcctgctaacttaatccaatggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAGTACCTCTGCATAGGACGCTTCTCAGCAGTTTCCTTCCAGGTTTTAGGTC
|||||   ||| |    ||||  | |  |  | | | ||    |  |  | |    |   |||||| ||     | | |    |||| |   |  ||  |   |   |  |||||| | ||| || ||||||||||| ||||| || || |||||||||||||| ||||| ||||| || ||||| ||||| |||||||||||||||||||| |
gtaagttgctttttcccctattgacac-tagtcttttatattctg-tatgtattatcttttattatacaaatactgttggattattcttttaattttttttttaatatccgcagTTATGCATTCTTCTTTCATGCTCACTAGCTGTATTTTGCAATGTGAGCCAATACCTTTGCATCGGGCGCTTTTCAGCTGTTTCCTTCCAGGTTTTAGGCC

upper sequence: Vv18s0122g00090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S15_387V6.1 (Physcomitrella patens), 3'ss of exon 5
gtaagaacttat-ctttctatgcatatattatttctaatggattactgagcacagccaca-tattatcagtctgtatagatagattcctgctaacttaatccaatggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAGTACCTCTGCATAGGACGCTTCTCAGCAGTTTCCTTCCAGGTTTTAGGTC
        | || | ||   ||   | |  || |   |||       |    | ||     |||| |  | ||| |     || ||         || |||  ||  ||||||||| || ||||| ||||| ||  | ||||| ||||||||||| |||||||||||| | ||||| || || ||||| || ||  | || |||          
------gttcattcctttcctggggagaaaatctagcatgtgaagtgggtttctgctctgctattgtttgactgcaagcggagctt--------gtttatcgtatcatgtgcagTTCTTTATACTTCTTTCGTGTACACTAGCGGTGTTCTGCAACGTGAGCCAGTACTTGTGCATCGGCCGGTTCTCCGCTGTGACATTTCAG----------

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|71890240|gb|DT039295.1|DT039295
EST:     TCCTTAATGGCAAATTTATTACAAACTATAAGCTGTCTTCTGGTGTCANN                         NNNNNCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAG
genomic: TCCTTAATGGCAAATTTATTACAAACTATAAGCTGTCTTCTGGTGTCATTgtaagaactt ... tggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAG
EST: gi|71885432|gb|DT034487.1|DT034487
EST:     TCCTTAATGGCAAATTTATTACAAACTATAAGCTGTCTTCTGGTGTCANN                         NNNNNCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAG
genomic: TCCTTAATGGCAAATTTATTACAAACTATAAGCTGTCTTCTGGTGTCATTgtaagaactt ... tggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAG
EST: gi|161711669|gb|FC058263.1|FC058263
EST:     TCCTTAATGGCAAATTTATTACAAACTATAAGCTGTCTTCTGGTGTCANN                         NNNNNCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAG
genomic: TCCTTAATGGCAAATTTATTACAAACTATAAGCTGTCTTCTGGTGTCATTgtaagaactt ... tggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catattatcagtctgtatagatagattcctgctaacttaatccaatggtgtgcagTTTTTCATACTCCTTTCATGCTCCCTAGCAGTGTTCTGCAATGTGAGCCAGTACCTCTGCATAGGACGCTTCTCAGCAGTTTCCTTCCAGGTTTTAGGTC
                                taacttaat  TA-rich tract