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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatttttacagctgtgcctagatgcttggatttttattgtgattgaatttgaacattgaaccaaactccaaaaaaatttatgctcttcatgcatagaagtaacatgagcatatgatttaactgttattaatcagattgatacaagtctggagttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG

Basic information

species Vitis vinifera
transcript Vv04s0008g03880.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g43630.1 (Oryza sativa), 3'ss of exon 8
gtgaatttttacagctgtgcctagatgcttggatttttattgtgattgaatttgaacattgaaccaaactccaaaaaaatttatgctcttcatgcatagaagtaacatgagcatatgatttaactgttattaatcagattgatacaagtctggagttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG
                                                            | |      |   | |  ||||   || ||||| |||  |   |  ||||   ||  ||| |||| |   |       ||  |   |||    |   ||   ||||||||  | || ||||||||  | ||||||||||| |||||||| |||||||| || ||||||||||| || ||||| ||||||||| |||||||||| || |
------------------------------------------------------------gtaagtttttttgatagtattttaactgttcat-cattcactaaggatgaa-gtac-attcaactctgggtgtctttgttcctg--agtaaaaa---cttaaatgtagGTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGTATAGCAGTTGTTGGAAACATCAGTAGCAAAAATATTCAGGAGCCAAAAG

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G029077_T01 (Zea mays), 3'ss of exon 6
gtgaatttttacagctgtgcctagatgcttggatttttattgtgattgaatttgaacattgaaccaaactccaaaaaaatttatgctcttcatgcatagaagtaacatgagcatatgatttaactgttatt--aatcagattgatacaagtctggagttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG
                                                    | |   ||     |  ||    |   || | | ||| | ||  |    || |  ||     || ||||||  |   | |   |||    || |     | |  |  |     | | ||||  | || |||||||| || || |||||||| ||||||||||||||||| || |||||||| || |||||||||||||||||  |||||||||| || |
---------------------------------------------------gtaagtgtttg-taatgctagttactgatctttactcatgatctagtctagcaggat-----tacgatttacattccacttgtatcttgatgttttggatttaaaaataaa--acgcagGTCTTGGTGAAAGATCTTCTCAGAAAATATCCTCAATGGAGTCATGATTGTATAGCAGTTGTGGGAAATATCAGCAGCAAAAACATTCAGGAGCCAAAAG

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 8
gtgaatttttacagctgtgcctagatgcttggatttttattgtgattgaatttgaacattgaaccaaactccaaaaaaatttatgctcttcatgcatagaagtaacatgagcatatgatttaactgttattaatcagattgatacaagtctggagttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG
                                                                                            |   |    ||||    ||    |||  |   |  |  | |||   |  | ||| |  |    ||  | |||| ||||  | ||||||||||| || || |||||||| |||||||| |||||||| || || |||||||| |||||||||||||||||  | ||||||||||| |
-------------------------------------------------------------------------------------------gtaagtgtttgtaatgctagttactgacct--ttactcatgatctattcta-acaggattctgatttacacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G08590.1 (Glycine max), 3'ss of exon 6
gtgaatttttacagctgtgcctagatgcttggatttttat-tgtgattgaatttgaacattgaaccaaactccaaaaaaatttatgctcttcatgcatagaagtaacatgagcatatgatttaactgttattaatcagattgatac-aagtctgga-gttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG
|| ||  |    ||      |||| | |   ||  ||| |   | |  | | |    | |||    | | |  |   |||  | || |      | |   |||   |||    || ||| |||  | |  |     ||| | || | |||| || | ||||  |  |  |||||||||| |||||||||||||| |||||||||||||||||||| ||||| ||||| |||||||| |||||||| || |||||||| || || |||||||
gtaaacatgacaagtgcctgctagctaccctgaaatttgtgcttaagagtagtattgctttgttttatattatatgcaaacatgtgtt------gaaagtaag--gcattttgatttgacttagatatggtatggtagactaatgcgaagtttgaaagttcatttgttcagGTGCTTGTGAAAGATCTGCTAAGAAAATATCCACAATGGAGTCAGGATTGTATTGCTGTTGTTGGAAATATCAGTAGTAAAAATGTCCAAGAACCCAAGG

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G08480.1 (Glycine max), 3'ss of exon 6
gtgaatttttacagctgtgcctagatgcttggatttttat-tgtgattgaatttgaacattgaaccaaactccaaaaaaatttatgctcttcatgcatagaagtaacatgagcatatgatttaactgttattaatcagattgatac-aagtctgga-gttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG
|| ||  |    ||      |||| | |   ||  ||| |   | |  | | |    | |||    | | |  |   |||  | || |      | |   |||   |||    || ||| ||| || |  |     ||| | || | |||| || | ||||  |  |  |||||||||| |||||||||||||| |||||||||||||||||||| ||||| ||||| |||||||| |||||||| || |||||||| || || |||||||
gtaaacatgacaagtgcctgctagctaccctgaaatttgtgcttaagagtagtattgctttgttttatattatatgcaaacatgtgtt------gaaagtaag--gcattttgatttgacttagctatggtatggtagactaatgcgaagtttgaaagttcatttgttcagGTGCTTGTGAAAGATCTGCTAAGAAAATATCCACAATGGAGTCAGGATTGTATTGCTGTTGTTGGAAATATCAGTAGTAAAAATGTCCAAGAACCCAAGG

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G11490.2 (Arabidopsis thaliana), 3'ss of exon 6
gtgaatttttacagctgtgcctagatgcttggatttttattgtgattgaatttgaacattgaaccaaactccaaaaaaatttatgctcttcatgcatagaagtaacatgagcatatgatttaactgttattaatcagattgatacaagtctggagttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG
                                              | || |   |  |||||| |   | ||   | ||   ||  | |||  ||| ||       |    ||||  ||||  | ||  |||  |   |   ||  ||||||   |  ||| | ||||| |||||||| || || |||||||| |||||||||||||| ||||| |||||| | |||||||||  |||||||||||||||| | ||||| || || |
---------------------------------------------gtaaactatcat-ttgaacta---ttcacggagatgattggccatca--cattga-------tacttatattgtttacattttcataacaa---ttccacttgtctgg---ttcctcttctagGTTCTTGTAAAGGACCTTCTAAGGAAGTATCCACAATGGAGCCATGACTGCATTTCTGTTGTTGGGGGTATCAGCAGCAAAAATATCCAGGAACCGAAAG

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ07665 (Selaginella moellendorffii), 3'ss of exon 5
gtgaatttttacagctgtgcctagatgcttggatttttattgtgattgaatttgaacattgaaccaaactccaaaaaaatttatgctcttcatgcatagaagtaacatgagcatatgatttaactgttattaatcagattgatacaagtctggagttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG
                                                                                                                 ||||  |  | |    ||||  | ||   |     | |||  |  | |||    |||  | || |||||  || | || || || ||| ||||||||||||| |||||||| |||||||| ||| | || ||||||| | ||||||| || || |
----------------------------------------------------------------------------------------------------------------gtatggct--attcaatttaaaaacatcccttacgctttggtttcgtttca----gGTCTTAGTGAAAGACTTGGTGAGAAAGTACCCAGAATGGAGTCATGACTGCATTGCGGTTGTTGGAAATGTGAGTAGCAAAAGTATTCAGGAACCGAAAG

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|161711481|gb|FC058683.1|FC058683
EST:     TTCTTCAATTTCTTGAGATGGAGAAGGACTATGTGACTGCTGAAACTCTG                         GTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGC
genomic: TTCTTCAATTTCTTGAGATGGAGAAGGACTATGTGACTGCTGAAACTCTGgtgaattttt ... tctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgatttaactgttattaatcagattgatacaagtctggagttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG
                                          ttctctcat  CT-rich tract
     tttaactgttattaat  TA-rich tract