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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTAAAGTGCATGATGAATGGTTTGCAGATGAAGAGAAGGTCCGAAAGGCTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAGgtgaggagacacatttttaaaggcgacttaattaattaattgacttttgtgtttttgcctgaaagttaggaatgtgatcaacatttttaagtgagcaaatctctgtgccatcttctttctgtgaagttcgtctaatatatgtttatgttttgacag

Basic information

species Vitis vinifera
transcript Vv00s0207g00090.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0207g00090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 3
---CAGTAAAGTGCATGATGAATGGTTTGCAGATGAAGAGAAGGTCCGAAAGGCTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAGgtgaggagacacatttttaaaggcgacttaattaattaattgacttttgtgtttttgcctgaaagttaggaatgtgatcaacatttttaagtgagc-aaatctctgtgccatcttctttctgtgaagttcgtctaatatatgtttatgttttgacag
   |||||| |||||||||||||||||||| ||||||||  | || || |||| |||||| ||    || || |   |||   || | || ||||  ||||| ||  |      | ||  ||        ||||  ||||||   ||||| | |  | | |    || ||     | |        | |    | |||| |    | | ||                                                 
TGTCAGTAAGGTGCATGATGAATGGTTTGCTGATGAAGAACATGTTCGTAAGGTTGTTGGTTTTCCGGAAAAGCTCATCG---AAATGCCAAATGACAGAGAAgtatgcctttgccttactag-------ttaaacaattaaa-aactttgggggatgtacaaacaatttgaagttctagcagttgtatgcctgcgagccaggattttttg-------------------------------------------------

upper sequence: Vv00s0207g00090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G143644_T01 (Zea mays), 5'ss of exon 3
---CAGTAAAGTGCATGATGAATGGTTTGCAGATGAAGAGAAGGTCCGAAAGGCTGTTGGCTTGTT-----AGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAGgtgaggagacacatttttaaaggcgacttaattaattaattgacttttgtgtttttgcctgaaagttaggaatgtgatcaacatttttaagtgagcaaatctctgtgccatcttctttctgtgaagttcgtctaatatatgtttatgttttgacag
   ||| ||  ||  |||||||||||||||||||||||| || |||||  |  ||||||||||  |     |  |||| ||   |  |   ||    | |  |      | |     ||||||| ||       ||||   ||  |   |     |||||  |    |  ||  |  |  | |||   |  ||  ||  |       |||     | ||||| ||  | || ||                              
CATCAGCAAGTTGAGTGATGAATGGTTTGCAGATGAAGAAAAAGTCCGCCATACTGTTGGCTTACTTTTGAATGGAAATCATGAGCCCGGCTCTAGGAAGgcaagat--ttacatttcacatttctatgcttttcttatcaaagcagaagcagcatgtgtaatctggtagaacctttggctctgacatatgttcatattt-------tcttctaacaatctttttggt-tgcag------------------------------

upper sequence: Vv00s0207g00090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 5'ss of exon 3
CAGTAAAGTGCATGATGAATGGTTTGCAGATGAAGAGAAGGTCCGAAAGGCTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAGgtgaggagacacatttttaaaggcgacttaattaattaattgacttttgtgtttttgcctgaaagttaggaatgtgatcaacatttttaagtgagcaaatctctgtgccatcttctttctgtgaagttcgtctaatatatgtttatgttttgacag
 || | ||| ||||||||||||||||| ||||| || ||||| ||| | |||||||| || ||||||||||| || ||| | ||||| | || | |||| || | |   | |||| || |       || |||  |  ||| || || ||   ||   || | ||     |||    ||| |  | | |  |  |||                                                           
GAGCAGAGTTCATGATGAATGGTTTGCTGATGAGGAAAAGGTTCGAGATGCTGTTGGTTTATTAGAGAAACCTGTTGTTGATTTCCCAACTGATGGAGAAgt-atgtctcccattgttta---tattttcatt--tcgattaacatt-gtaaattcatctaatag-----aat----tcagctgtgtcattttggcag----------------------------------------------------------

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|28961323|gb|CB340672.1|CB340672
EST:     CTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAG                         CTGACTTGTGGGATATGTTTTGAAAACTATCCTCGTGATAGGATAAGTTCT
genomic: CTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAGgtgaggagac ... gttttgacagCTGACTTGTGGGATATGTTTTGAAAACTATCCTCGTGATAGGATAAGTTCT
EST: gi|110378373|gb|EC943503.1|EC943503
EST:     CTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAG                         CTGACTTGTGGGATATGTTTTGAAAACTATCCTCGTGATAGGATAAGTTCT
genomic: CTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAGgtgaggagac ... gttttgacagCTGACTTGTGGGATATGTTTTGAAAACTATCCTCGTGATAGGATAAGTTCT
EST: gi|294965747|gb|GW839202.1|GW839202
EST:     CTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAACGCTAGAGAG                         CTGACTTGTGGGATATGTTTTGAAAACTATCCTCGTGATAGGATAAGTTCT
genomic: CTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAGgtgaggagac ... gttttgacagCTGACTTGTGGGATATGTTTTGAAAACTATCCTCGTGATAGGATAAGTTCT
EST: gi|110383372|gb|EC947743.1|EC947743
EST:     CTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAG                         CTGACTTGTGGGATATGTTTTGAAAACTATCCTCGTGATAGGATAAGTTCT
genomic: CTGTTGGCTTGTTAGAGAAACCAGTCGTTCAATTCCCTAATGCTAGAGAGgtgaggagac ... gttttgacagCTGACTTGTGGGATATGTTTTGAAAACTATCCTCGTGATAGGATAAGTTCT