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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTATGGCATGGATTTTGGACGAGTACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagtatttgcgacaaaaaaccgagcatctatgatttagatttgtgtaaacctttgaagtcgagaaacaaaatttgtaactgttgtttcttgttctttggactcatttacatttgggcttttag

Basic information

species Vitis vinifera
transcript Vv16s0039g02750.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0039g02750.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os04g45970.1 (Oryza sativa), 5'ss of exon 4
ACTATGGCATGGATTTTGGACGAGTACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagtatttgcgacaaaaaaccgagcatctatgatttagatttgtgtaaacctttgaagtcgagaaacaaaatttgtaactgttgtttcttgttctttggactcatttacatttgggcttttag
|| ||||| ||||||||||| |||||||| |||||||||||||| |||||||| || || ||||| |||||||||||||||||     |||| ||  | |  |||||         ||||||||||   |   | |  | |  ||    |||||  |    | | ||  |  | |                         
ACCATGGCTTGGATTTTGGATGAGTACTCGAAATTCCATGGTCATTCACCGGCAGTTGTCACTGGGAAGCCAATAGTAAgtatactatacaacaacacaa--atcta--------gtttgtgtaaa---taacaatttacatccagtgattgtattttgnatatttttgttgtag-------------------------

upper sequence: Vv16s0039g02750.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM2G427097_T01 (Zea mays), 5'ss of exon 4
ACTATGGCATGGATTTTGGACGAGTACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagt----atttgcgacaaaaaaccgagcatctatgatttagatttgtgtaaacctttgaagtcgagaaacaaaatttgtaactgttgtttcttgttctttggactcatttacatttgggcttttag
|| |||||||||||  |||| |||||||| ||||| ||||||||||| || || || || ||||| |||||||||||||||    |  || | ||  ||    |     |   | | |  ||| |   ||  | | |  |     || |||   ||||     |  || || |  |||  |||| |||   ||||   || |||
ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaaaaatgtggcagcaagttaaattggtgccaataaacttttttacaaagtataatataacagaaaaaa---tgtacacaatagttattatcatttttactcttttttgtttgttgttgtag

upper sequence: Vv16s0039g02750.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: PP1S62_236V6.1 (Physcomitrella patens), 5'ss of exon 5
ACTATGGCATGGATTTTGGACGAGTACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagt----atttgcgacaaaaaaccgagcatctatgatttagatttgtgtaaacctttgaagtcgagaaacaaaatttgtaactgttgtttcttgttctttggactcatttacatttgggcttttag
|||||||| |||||||||||||||||||| ||||| |||||  |  | |||||||| || ||||| || ||  | ||||||     | | | || |||||| | | |    | |       ||||  | |  ||||||   ||  | |    |||   ||  ||| | ||| |  |||    ||||  |               
ACTATGGCTTGGATTTTGGACGAGTACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaatgtctcctaccaaaaactgtgtacagcttaacc--gcttgttcagatgtttgaa--tgactatccc--tttcctacgattgatccttttcttttactttcatgaag--------------

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|110383828|gb|EC948229.1|EC948229
EST:     CGGCCGTAGTGACTGGAAAGCCAATA                         GCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCACCTGGTCGAGGTGTT-TT
genomic: CGGCCGTAGTGACTGGAAAGCCAATAgtaagtattt ... gggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
EST: gi|30251187|gb|CB968920.1|CB968920
EST:     ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATA                         GCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
genomic: ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagtattt ... gggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
EST: gi|161720824|gb|FC069589.1|FC069589
EST:     ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATA                         GCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
genomic: ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagtattt ... gggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
EST: gi|161712921|gb|FC062394.1|FC062394
EST:     ACTCAAAATTCCATGGGCACTCACCGGCCGTAGTGACTGGAAAGCCAATA                         GCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
genomic: ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagtattt ... gggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
EST: gi|156737272|gb|EV241386.1|EV241386
EST:     ACTCAAAATTCCATTGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATA                         GCTCTTGGTGGTTCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
genomic: ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagtattt ... gggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT