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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttgagatctctgctgcccaattacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG

Basic information

species Vitis vinifera
transcript Vv15s0046g02460.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os06g51430.1 (Oryza sativa), 3'ss of exon 10
gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttgagatctctgctgcccaattacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG
               ||   ||||         |||  |||  | ||  ||| |  |||||      ||||||   ||   ||    ||     | |  | ||||  |    | |||||||||||||||| | || ||  || || ||  | || ||| |||| || || || |||||||||||||| ||||| || ||||||||||||||||| |
-------------gtaagttttgtgga------aatttattctagacttctggtaattggt------gatctc-attgtttaagctaagttggttatgctggtgtgcttctcaaagGTAGCTCGTGGTGACAAGACTGATGAAGACGGCGTCCCCATGTTACTAAAAATTCCACGAATGTTTGATCCATGGGGAGGATACAGCATCATTGGATTCG

upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os02g57710.1 (Oryza sativa), 3'ss of exon 10
gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttgagatctctgctgcccaattacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG
                    | | || |  |  | ||| ||   |  |  |||||||  |    ||  |  |  |      || | |  | |    ||   | || | ||   ||||| || |||||||||| || ||  || || ||| | || |||||  | || ||||| |||||||||||||| |||||||| | ||| |||||||| ||||
-------------------gtaggta-cagatgactactttcatactg--tgatgttctgcttctgcaacttgcg------aaatgctaattgcccta---gcgtctgct-cgtagGTTGCCCGTGGTGATAAGACTGATGAAGACGGTGTGCCCATGCTGTTAAAAATCCCACGAATGTTTGATCCATGGGGTGGATTCAGTATCATTGGCTTTG

upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 8
gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttgagatctctgctgcccaattacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG
                      || |||     ||       ||  | |||  |   |||||      || | |||||     ||| ||    ||||   | | || |    |||||| || ||||| || | ||  |  ||||||||| | || ||||| || || |||||||||||||||||||| |||||||| |||||||||||||| ||||
----------------------gtaagcgtgtgaaaggg---gattctgctatttggtggtatcctgaattt-tgctg----gttatag---catgttggtttcttctgcaaatagGTTGCGCGTGGCGACAAGACCGACGAGGATGGTGTGCCCATGCTGCTAAAAATCCCGCGAATGTTTGATCCATGGGGTGGATACAGCATCATTGGCTTTG

upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G39500.1 (Glycine max), 3'ss of exon 10
gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatg-tttggtacttga-gatctctgctgc-ccaattacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG
|| |||  |||||   ||  |  |     |  |||||      |    | |  || | |  || |  | |||   ||||   |  |||| |  | |     ||| |   |||| |  |||||||||| |||||||||||||| || |||||||| || |||||||| ||||| || || |||||||||||||||||||| |||||||||||||| ||||
gtgagtgatttcttggaagatc-tcccttcgacaatatcacaaagcttgtttttgatctcataatacatgattgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCTTGGGGTGGTTACAGCATCATTGGTTTTG

upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 10
gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttgagatctc-tgctgccca-attacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG
|| |||  ||||    ||  |         || | |   ||   || |  || | |||    | | | |  |  ||||   |  |||| |  | |     ||| |   |||| |  |||||||||| |||||||||||||| || |||||||| || |||||||| ||||| || || ||||||||||| |||||||| |||||||||||||| ||||
gtgagtgatttcgaggaagatctcccttagactattc--ttcacaaagcttgttttttatctcataaaacatgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCCTGGGGTGGTTACAGCATCATTGGTTTTG

upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA07G07610.1 (Glycine max), 3'ss of exon 11
gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttgagat--ctctgctgcccaattacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG
|| |||  |||    || | |     | |  | |  |   || | |  |||    |||||      | ||    ||| |  ||  |||   ||||||       | || ||  || |||||||||| ||||||| |||||| || |||||||| || ||||| || ||||| || ||  ||||||||||||||||||| ||||| ||||| |||||||
gtgagtgttttaaagaacaatcccccgtct-ctaccattcttcacaaagcttgattttggcctcatacatgatgctgttttcctgtta--aaattat-------tattctccatacagGTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAGATACCACGTCTGTTTGATCCTTGGGGTGGTTACAGTATCATCGGATTTG

upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA03G01100.1 (Glycine max), 3'ss of exon 10
gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttg-agatctctgctgcccaattacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG
    ||   |  |  |||    |||  ||| | |  |   ||   |  | |||| || |   | |  |     ||| |  ||  |||   ||||||       | || ||  || |||||||||| ||||||| |||||| || |||||||| || ||||| || ||||| || ||  | ||||||||||||||||| ||||| ||||| |||||||
----gtgagtgttttaaagaaagttctccctctaccattcttcccaaagttgattttggcctcatacatgatgctgttttcctgtta--aaattat-------tattctccatacagGTAGCTCGAGGTGATAAGAGTGGAGAAGATGGTATCCCCATGCTTCTCAAGATACCACGTCTATTTGATCCTTGGGGTGGTTACAGTATCATCGGATTTG

upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaagtagttt-------ctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttgagatctctgctgcccaattacagaattatgtaattgtg----ttttct-----------gtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG
||||||  ||        ||||| | | |  |     |  | |   || || |   |   |      ||||| |  | |||||| | || | | |  ||     ||||||     |||||             |||||||||| |||||||| || || || ||||| || ||||| |||||||| |||||||| |||||||||||||||||||||||||||||||| ||||||||||
gtaagtttttcttttttgctccagaccatcatgcaagaagactttgttagatattccaactacaca-tactt-atctgtctgctccacactgatattatcggagaattgtacgtcttttcccattttcccacatatagGTAGCCCGTGGTGACAGAAGCGGAGAGGACGGAATTCCAATGCTACTAAAGATCCCACGAATGTTTGATCCTTGGGGTGGCTACAGCATAATTGGATTTG

upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: PP1S124_16V6.1 (Physcomitrella patens), 3'ss of exon 10
------------------------------------------------------------------------gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttgagatctc-tgctgcccaattacagaattatg-taattgtgttttct--gtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG
                                                                           | |   | ||   | |  |||   |      || || || ||   ||||| | | ||||  |  | | ||    | | ||| | | ||  ||||   ||||   |||    | | |||| ||||| || |||| ||     |  || |||||||| ||||| || ||  | || ||  | |||||||| |||||||||||||| |||||||| ||||
gtatgttcatcaatctggcttttcctatttaagacgcgcgtttttgaaattgtttcgacttctaggttgtgaactattgagtgctttgacaaatgtcgtctttttcat-cacttcaa---gctgacgatcggtagcttgggtatcacaatacacaagtgctgagatatgacgattgaacttttctgggacagGTTGCTCGGGGAGATAAGACCAATGGAGAGGGTATTCCTATGCTTCTTAAAGTTCCACGTCTTTTTGATCCATGGGGTGGCTACAGTATCATTGGTTTTG

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|110401255|gb|EC967858.1|EC967858
EST:     TTTGGGTTTTTGTTTCTAAATGGTGGTTCAATGAGAGTGTGATGATTGTG                         GTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAG
genomic: TTTGGGTTTTTGTTTCTAAATGGTGGTTCAATGAGAGTGTGATGATTGTGgtaagtagtt ... ttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAG
EST: gi|110369217|gb|EC933370.1|EC933370
EST:     TTTGGGTTTTTGTTTCTAAATGGTGGTTCAATGAGAGTGTGATGATTGTG                         GTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAG
genomic: TTTGGGTTTTTGTTTCTAAATGGTGGTTCAATGAGAGTGTGATGATTGTGgtaagtagtt ... ttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgagatctctgctgcccaattacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG
                                         tgttttct  CT-rich tract
                    aattacagaattat  TA-rich tract