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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGACTGTTGGGCAGTTTGTTTATGTGATCCGGAAGAGGATCAAGCTTAGTGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaagaattcctttttaatattcaaatacacatatcgatgatgtagtttctgtaactatttattatttatattcatttatttgtattttgtgttatcacag

Basic information

species Vitis vinifera
transcript Vv19s0090g00580.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0090g00580.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os08g09240.1 (Oryza sativa), 5'ss of exon 5
CTGACTGTTGGGCAGTTTGTTTATGTGATCCGGAAGAGGATCAAGCTTAGTGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaagaatt--cctttttaatattcaaatacacatatcgatgatgtagtttctgtaactatttattatttatattcatttatttgtattttgtgttatcacag
|| || ||||| |||||||| |||||  | |||||| |||||||||| |||||||||||||| || ||||| || ||||||||    || ||||| || |||  |  |  ||   |  |   |  | |||  |  ||||    || |   |   ||  ||| |   |  |   || | |   || || | |||    | |   ||||
CTCACGGTTGGACAGTTTGTGTATGTTGTTCGGAAGCGGATCAAGCTCAGTGCTGAGAAGGCAATCTTCATCTTCGTCAAGAACACGCTTCCACCAACAGgtatggcaatatgagctctgggagcactcagttcaacatcaacataaaaaaaaatc-ataattgcgtgatccctaaaatgccttgtt-gcatt----gctcctacag

upper sequence: Vv19s0090g00580.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os04g53240.2 (Oryza sativa), 5'ss of exon 6
CTGACTGTTGGGCAGTTTGTTTATGTGATCCGGAAGAGGATCAAGCTTAGTGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaag-----------aattcctttttaatattcaaatacacatatcga-tgatgtagtttctgtaactatttattatt----tatattcatttatttgtat--tttgtgttatcacag------------------------
|| || |||||||||||||| |||||  | |||||| |||||||||| ||| ||||||| || || ||||| ||||| ||||||  ||| ||||| || |||  ||||            | || | ||| || |  |||  ||     |||| |  | ||  | ||| |    ||||| ||     ||| |  |   |  || ||  ||  ||||||| ||                         
CTTACCGTTGGGCAGTTTGTCTATGTTGTTCGGAAGCGGATCAAGCTCAGTCCTGAGAAAGCAATCTTCATCTTTGTGAAGAATACTCTTCCACCAACAGgtctgaaaatcccttgaatcattttcctttgaaaacacaaggactttggtcgaatagtata-ctactgca-tggtttatgatcccagtatctcaaagaacctgcatggttcatgttatctcatttcatcactttgttggatttgcag

upper sequence: Vv19s0090g00580.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G419694_T05 (Zea mays), 5'ss of exon 5
CTGACTGTTGGGCAGTTTGTTTATGTGATCCGGAAGAGGATCAAGCTTAGTGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgt----------------gagaaagaattcctttttaat----attcaaatacacatatcga-tgatgtagtttctgtaactatttattatttatattca--tttatttgtat-tttgtgttatcacag
|| || || ||||| || || |||||  |  ||||||| |||||||| ||||||||||||||||| ||||| ||||| || ||    || ||||| || |||                || | |  || |  || | |     |||    | |  |||   | |||||   ||   | |     |  | |||   | |    |||| |||  |  ||||       |||
CTTACAGTCGGGCAATTCGTGTATGTTGTTAGGAAGAGAATCAAGCTCAGTGCTGAGAAGGCTATCTTCATATTTGTGAAAAACACCCTTCCACCAACAGgtctggaaagtcaatgcagaaacaacatgctcttctgactctgattttgcttcctataagaactgatggtattcggggacacgatcctcattctcacttgattttacttgcttgcttgtacccgtgcag

upper sequence: Vv19s0090g00580.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G076826_T01 (Zea mays), 5'ss of exon 6
CTGACTGTTGGGCAGTTTGTTTATGTGATCCGGAAGAGGATCAAGCTTAGTGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaagaattcctttttaatattcaaatacacatatcgatgatgtagtttc-tgtaactatttattatttatatt---catttatttgtattttgtgttatcacag-------------------------------------------------------
|| || ||||| || || || |||||  |  ||||||| |||||||| ||||||||||| ||||| ||||| ||||| |||||    || ||||| || |||  | || |       |  |      | ||||   |  |  |||| | | ||| | |||  ||| ||    |   ||   |||||      ||  |     |||                                                           
CTTACGGTTGGACAATTCGTGTATGTTGTTAGGAAGAGAATCAAGCTCAGTGCTGAGAAAGCTATCTTCATCTTTGTGAAGAACACCCTTCCACCAACAGgtctggaaaa---taaatacagagacaacatacttctgactctgattttgcttcctataagaattgatggcattcgttgagcatttggggacatgatcccccatcctcacttgatcttacttgcattctcacttgattttacttgcttccctgaacctgtgcag

upper sequence: Vv19s0090g00580.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G134613_T08 (Zea mays), 5'ss of exon 1
CTGACTGTTGGGCAGTTTGTTTATGTGATCCGGAAGAGGATCAAGCTTAGTGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtg--agaaagaattcctttttaatattcaaatacacatatcgatgatgtagtttctgtaactatttattatttatattcatttatttgtattttgtgttatcacag
|| || || || |||||||| |||||| | |||||| |||||||||| || ||||||||||| || ||||| || || |||||    || ||||| || |||    || || | | | || |  | |    ||||   | | |  ||   |        |||     |   |       |      |    || | |||     |||
CTCACAGTCGGACAGTTTGTGTATGTGGTACGGAAGCGGATCAAGCTCAGCGCTGAGAAGGCAATCTTCATCTTCGTAAAGAACACCCTCCCACCAACAGgtaccggacagtagttccttctgttgtc---ataccagtgttggggaaaaataaaacaaaacctaccacggt--gccccccgcccgtaacgttgt-tgtccctgcag

upper sequence: Vv19s0090g00580.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: EFJ35003 (Selaginella moellendorffii), 5'ss of exon 4
CTGACTGTTGGGCAGTTTGTTTATGTGATCCGGAAGAGGATCAAGCTTAGTGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaagaattcctttttaatattcaaatacacatatcgatgatgtagtttctgtaactatttattatttatattcatttatttgtattttgtgttatcacag
 | || ||||| ||||| || |||||||||||||||||||||||  | | | | |||||||| || ||| |||| ||||||||    ||||| || ||||||  ||       || |    |  |      ||  |||| |||  |  | | |   |  |  ||| |                                      
TTAACCGTTGGCCAGTTCGTCTATGTGATCCGGAAGAGGATCAAAGTGACTCCGGAGAAGGCAATCTTCGTTTTCGTCAAGAACACGCTACCGCCGACTGgtatgag------ccgtcgagacgtaatcccacgtatattgatt-tacactattcctttccttttgtag------------------------------------

upper sequence: Vv19s0090g00580.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: EFJ09352 (Selaginella moellendorffii), 5'ss of exon 4
CTGACTGTTGGGCAGTTTGTTTATGTGATCCGGAAGAGGATCAAGCTTAGTGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaagaattcctttttaatattcaaatacacatatcgatgatgtagtttctgtaactatttattatttatattcatttatttgtattttgtgttatcacag
 | || ||||| ||||| || |||||||||||||||||||||||  | | | | |||||||| || ||| |||| ||||||||    ||||| || ||||||  ||       || |    |  |      ||  |||| |||  |  | | |   |  |  ||| |                                      
TTAACCGTTGGCCAGTTCGTCTATGTGATCCGGAAGAGGATCAAAGTGACTCCGGAGAAGGCAATCTTCGTTTTCGTCAAGAACACGCTACCGCCGACTGgtatgag------ccgtcgagacgtaatcccacgtatattgatt-tacactgttcctttccttttgtag------------------------------------

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|27584174|gb|CB006869.1|CB006869
EST:     TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTG                         CTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
genomic: TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaaga ... gttatcacagCTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
EST: gi|110407776|gb|EC973391.1|EC973391
EST:     TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTG                         CTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
genomic: TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaaga ... gttatcacagCTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
EST: gi|32459630|gb|CD800804.1|CD800804
EST:     TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTG                         CTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
genomic: TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaaga ... gttatcacagCTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
EST: gi|110390932|gb|EC955876.1|EC955876
EST:     TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTG                         CTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
genomic: TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaaga ... gttatcacagCTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
EST: gi|110694887|gb|EE072272.1|EE072272
EST:     TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTG                         CTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
genomic: TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaaga ... gttatcacagCTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
EST: gi|46911389|gb|CN546764.1|CN546764
EST:     TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTG                         CTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
genomic: TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaaga ... gttatcacagCTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
EST: gi|110421257|gb|EC987552.1|EC987552
EST:     TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTG                         CTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
genomic: TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaaga ... gttatcacagCTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
EST: gi|110422502|gb|EC988827.1|EC988827
EST:     TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTG                         CTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
genomic: TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaaga ... gttatcacagCTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
EST: gi|71888297|gb|DT037352.1|DT037352
EST:     TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTG                         CTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC
genomic: TGCTGAGAAGGCTATTTTCATTTTTGTCAAGAATGTTCTACCACCCACTGgtgagaaaga ... gttatcacagCTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCC