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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgcatcaaacctttggggctcccgacaattctcaatttctctggctgattcaaataaaattaactgcagACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTGCCTTCCCCCTTGCATTTGCCTTTGCGGCATTG

Basic information

species Vitis vinifera
transcript Vv09s0002g02590.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g02590.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G089553_T01 (Zea mays), 3'ss of exon 12
------------------------------------------------------------------------------gtaatgcatcaaacctttggggctcccgac-aattctcaatttctctggctgattcaaataaaattaactgcagACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTGCCTTCCCCCTTGCATTTGCCTTTGCGGCATTG-----------------
                                                                                | |||||      ||||         |  || |    || | | ||  |   | |  |  |||  | | |||||||||||||| || |  | |||||||||||||| ||||||||||||||||| || ||  |    ||   |||||| ||  ||                 
gttagtatttatccttttcagttcctttggtagtcagtttggatgtgcttcatatataccattcgtgttgcgtttcagtcattgcatttgcagtttgaaaaggaaaaggaaatgatgatgtttgtgcttatatta--ttgaatccattacagACTTTCTGGAGCTGACTCTTCAGTTTGGAATGATCATGATGTTTGCCTGTGCATTTCCATTGATTTTCTGCTTTGCAGCTCTGGTTTGTGCTCTTTCAAA

upper sequence: Vv09s0002g02590.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G089553_T02 (Zea mays), 3'ss of exon 9
------------------------------------------------------------------------------gtaatgcatcaaacctttggggctcccgac-aattctcaatttctctggctgattcaaataaaattaactgcagACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTGCCTTCCCCCTTGCATTTGCCTTTGCGGCATTG
                                                                                | |||||      ||||         |  || |    || | | ||  |   | |  |  |||  | | |||||||||||||| || |  | |||||||||||||| ||||||||||||||||| || ||  |    ||   |||||| ||  ||
gttagtatttatccttttcagttcctttggtagtcagtttggatgtgcttcatatataccattcgtgttgcgtttcagtcattgcatttgcagtttgaaaaggaaaaggaaatgatgatgtttgtgcttatatta--ttgaatccattacagACTTTCTGGAGCTGACTCTTCAGTTTGGAATGATCATGATGTTTGCCTGTGCATTTCCATTGATTTTCTGCTTTGCAGCTCTG

upper sequence: Vv09s0002g02590.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G091494_T02 (Zea mays), 3'ss of exon 12
-----------------------------------------------------gtaa----tgcatcaaacctttggggctcccga-caattctcaatttctctggctgattcaaataaaattaactgcagACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTGCCTTCCCCCTTGCATTTGCCTTTGCGGCATTG
                                                      |||    ||     | | ||||  | |    | ||| |     | | | ||  |   | |  |  |||  ||| |||||||||||||| ||||  | |||||||| ||||| ||||||||||||||||| || ||  |   |||   |||||| ||  ||
gtaaatatgtccttttcggttcttttaatagtcactctggatgcagttcatatataacacctgtgcttagcatttgcagtttgaaagcaaatgatggtgtttgtgcttatatta--ttgaatccactacagACTTTCTGGAGCTGGCTCTTCAGTTTGGCATGATCATGATGTTTGCCTGTGCATTTCCATTGATATTCTGCTTTGCAGCTCTG

upper sequence: Vv09s0002g02590.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA07G01550.1 (Glycine max), 3'ss of exon 12
-----------------------------------------------------------------------------------------------------------gtaatgcatcaaacctttggggctcccgacaattctcaatttctct--ggctgattcaa--ataaaattaactgcagACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTGCCTTCCCCCTTGCATTTGCCTTTGCGGCATTG
                                                                                                            |||   |  ||  |||     |||   |   |    || |  ||   | ||||    |   ||   |    |||||| ||  | || ||||| |||||||||||||||||| |||||||||| || || ||||| | ||||||||| ||||| ||  ||
gtacttccaaattcattacacttttaaattgtatatggtatttaattaattcttgaacatatggaatataaatagtttcatttagatatacatgtgtgtgtagaagtctaaattaaaaaggcttgatttctcatcatgttcaagaagtgttccaagactgacattatcctatcctgttttgcagATTTCTTAGAATTGGCATTGCAGTTTGGAATGATTTTGATGTTTGCTTGCGCATTCCCACCTGCATTTGCTTTTGCTGCTGTG

upper sequence: Vv09s0002g02590.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G20980.1 (Glycine max), 3'ss of exon 13
gtaatgcatcaaacct---ttggggctcccgacaattctcaatttctctggctgattcaaa-------taaaattaac-----------------tgcagACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTGCCTTCCCCCTTGCATTTGCCTTTGCGGCATTG
||  | ||   || ||    |||     |  | ||  ||  |||||||    || |  | |        || | | ||                  ||||| ||  | || ||||| |||||||||||||||||| |||||||||| || || ||||| | ||||||||| ||||| ||  ||
gttgttcagagaatctattctggaaaaactaaaaaggcttgatttctcatcatgttcgagaagcgtcccaagactgacattgtcctatcctgtttcgcagATTTCTTAGAATTGGCCTTGCAGTTTGGAATGATTTTGATGTTTGCTTGCGCATTCCCACCTGCATTTGCTTTTGCTGCTGTG

upper sequence: Vv09s0002g02590.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G73020.2 (Arabidopsis thaliana), 3'ss of exon 13
------gtaatgcatcaaacctttggggctcc-cgacaat-tctcaatttctctggctgat---tcaaataaaa--tta------actgcagACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTGCCTTCCCCCTTGCATTTGCCTTTGCGGCATTG
        ||   || ||  |  ||    |    |   || | |  || |  || ||  ||   |||  |||||  |||      | |||||| |  || ||| |||| ||||||||||||||||||||||||||||| ||||||||||| ||||| |||||| |||| ||| ||
gtaagaaaaacttatgaagtcaatgatcttttgtggttatgttttgatgtagcttgcaaatgtctcagctaaaaatttattttgcattgcagATTCCCTCGAGCTGGCTTTGCAGTTTGGAATGATTATGATGTTTGCTTGTGCCTTCCCTCTTGCTTTTGCCCTTGCTGCAGTG

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|110687623|gb|EE065247.1|EE065247
EST:     TTCTTATTCAGCAAGTATTGGAGAAGAACTTGAAGATGGACTTTTTGATG                         ACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTG
genomic: TTCTTATTCAGCAAGTATTGGAGAAGAACTTGAAGATGGACTTTTTGATGgtaatgcatc ... ttaactgcagACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTG
EST: gi|110698301|gb|EE075671.1|EE075671
EST:     TTCTTATTCAGCAAGTATTGGAGAAGAACTTGAAGATGGACTTTTTGATG                         ACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTG
genomic: TTCTTATTCAGCAAGTATTGGAGAAGAACTTGAAGATGGACTTTTTGATGgtaatgcatc ... ttaactgcagACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggggctcccgacaattctcaatttctctggctgattcaaataaaattaactgcagACTTTCTGGAGTTGGCGTTGCAGTTTGGAATGATTATGATGTTTGCCTGTGCCTTCCCCCTTGCATTTGCCTTTGCGGCATTG
                                           aattaac  putative branch site (score: 2)
                               tgattcaaataaaatt  TA-rich tract