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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttgatcctggactggattgtagaatgttatggatgagattatatatgagtgagggtgtttgaagatactctttcttgtgattggaataaacaagtacagagttttaaatgggatgatttgtaaacttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGGTATGGAAACAACTATCCTCGACAAGTCCACCACCGAGGTTCCTCGATTG

Basic information

species Vitis vinifera
transcript Vv02s0025g01380.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G02610.1 (Glycine max), 3'ss of exon 6
-----------------gtaatttgatcctggactggattgtagaatgttatggatgagattatatatgagtga--gggtgtttgaagatactctt--------tcttgtgattggaataaacaagtacagagttttaaatgggatgatttgt-aaacttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGGTATGGAAACAACTATCCTCGACAAGTCCACCACCGAGGTTCCTCGATTG
                  || ||| |   |  | |  ||  ||  |    ||||     |||||| | ||   |  |  |  || ||  |||| |         | ||    |  | | || | |  |    | | ||| |    |||  ||| |||  | |||||||| ||  ||||||| |||||||||||||| || |||||||||||||| ||||||| |||||  || | |   || || ||| ||||||| || ||||
gtactgaaaaattgtctctatttttaagttttagttcat-ataagagaaaatgggcacaattata-aggaccaagtgaatagtttaacctactttcaattgaactttttcattctgtaaaatctatcagcaggatctaagtact-tgacatgttaaatcttcagGTGGACTACCTTCTTGGGGACAACCCAAGAGCTACTAGTTACATGGTGGGCTATGGAAGCAACTTCCCACAAAGGGTTCATCACAGAGGTTCATCCATTG

upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G36930.1 (Glycine max), 3'ss of exon 6
gtaatttgatcctggactggattgtagaatgttatggatgagattatatatgagtgagggtgtttgaagatactctttcttgtgat-tggaataaaca-agtacagagttttaaatgggatgatttgt-aaacttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGGTATGGAAACAACTATCCTCGACAAGTCCACCACCGAGGTTCCTCGATTG
                                   |||  |  | |   ||   | |      ||  |  |   ||||  |||    |  | |||| | |  |  | | | ||| |    |||  ||| |||  | ||||| || ||| ||||||| ||||||||||||||||| || || |||||||| ||||||| |||||  || | |   || || ||| ||||||| || ||||
-----------------------------------ggaccaagtga---atagttcaattcactttcaattgaactttgatgtttcattcattaaatatatcagtgggatctaagtact-tgacatgttaaatcttcagGTTGACTATCTTCTTGGTGACAACCCAAGAGCCACTAGCTATATGGTGGGCTATGGAAGCAACTTCCCACAAAGGGTTCATCACAGAGGTTCATCCATTG

upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G11050.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatttgatcctggactggattgtagaatgttatggatgagattatatatgagtgagggtgtttgaagatactctttcttgtgattggaataaacaagtacagagttttaaatgggatgatttgtaa-acttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGGTATGGAAACAACTATCCTCGACAAGTCCACCACCGAGGTTCCTCGATTG
                                 |    |   |||||||||   | |      | ||| ||      |    ||  |    |    || |   |  || |  ||    | |||   |  |||  ||||||||||| ||||||||||||||||| ||||| || ||||||||||| || || ||| | |||||||| |||||||| || || || ||||| || ||||
---------------------------------acatgttccattatatatccttaataaa--tagaaaatgtatcgtgaaatggataacctgtctaaatt--ggattattgatcaattaattaaaactactatcagGTGGATTACATTCTTGGAGACAACCCTAGAGCAACAAGTTACATGGTCGGATACGGAGAGAACTATCCACGACAAGTTCATCATCGTGGTTCGTCTATTG

upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ23398 (Selaginella moellendorffii), 3'ss of exon 7
gtaatttgatcctggactggattgtagaatgttatggatgagattatatatgagtgagggtgtttgaagatactctttcttgtgattggaataaacaagtacagagttttaaatgggatgatttgtaaacttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGGTATGGAAACAACTATCCTCGACAAGTCCACCACCGAGGTTCCTCGATTG
|| | |  |||   |       ||   ||  |         |||   |    || || |       || |  |||| | || |  ||    |   ||||||   ||   |      | |  | | |       ||||||||||| ||||| || ||||| ||  |||| ||||| ||| ||||||| | ||||  ||||||||| || ||||| |||||||| | | | || || |
gtgaatccatcacag------ctgctcaactt----agctcgatctcaggcaagcgaagaaaaacaaaaa-gctctcttttttcttttctcttc-caagtattaagcgatc-----gtttttctctctcgccacagGTGGATTACATTCTGGGTGACAATCCCCGAGCAACGAGCTACTTGGTGGGCTTTGGATTCAACTATCCCCGGCAAGTTCACCACCGCGCTGCATCCATCG

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|56409333|gb|CX017585.1|CX017585
EST:     TGCAAAATCTCAG                         GTGGATTATATTCTTGGAGACAACCCAAGAGCCACAAGTTACATGGTGGGG
genomic: TGCAAAATCTCAGgtaatttgat ... aaacttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGG
EST: gi|33405263|gb|CF210890.1|CF210890
EST:     CTGCTGGCAGTGTCTCACCATCTGGGCTTATTTCATTTGCAAAATCTCAG                         GTGGATTATATTCTTGGAGACAACCCAAGAGCCACAAGTTACATGGTGGGG
genomic: CTGCTGGCAGTGTCTCACCATCTGGGCTTATTTCATTTGCAAAATCTCAGgtaatttgat ... aaacttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGG
EST: gi|110370959|gb|EC934612.1|EC934612
EST:     GCAAAATCTCAG                         GTGGATTATATTCTTGGAGACAACCCAAGAGCCACAAGTTACATGGTGGGG
genomic: GCAAAATCTCAGgtaatttgat ... aaacttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGG
EST: gi|30297299|gb|CB974093.1|CB974093
EST:     TCATTTGCAAAATCTCAG                         GTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGG
genomic: TCATTTGCAAAATCTCAGgtaatttgat ... aaacttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGG
EST: gi|34544409|gb|CF512641.1|CF512641
EST:     CTGCTGGCAGTGTCTCACCATCTGGGCTTATTTCATTTGCAAAATCTCAG                         GTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGG
genomic: CTGCTGGCAGTGTCTCACCATCTGGGCTTATTTCATTTGCAAAATCTCAGgtaatttgat ... aaacttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgattggaataaacaagtacagagttttaaatgggatgatttgtaaacttgcagGTGGATTATATTCTTGGAGACAACCCAAGAGCCACGAGTTACATGGTGGGGTATGGAAACAACTATCCTCGACAAGTCCACCACCGAGGTTCCTCGATTG
                       agttttaaat  TA-rich tract