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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCACCTTTACTGTTTCGAACTTGGGAGGACCATTTGGAGTCAAACAATTTTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTGgtatgctgcagctgatcattgccttcatcttcttcttcttcttcttccattttctgttggcctgttgcttttacctggactatcattagttttgttttacttttactaagcactgtacaattttcttgaccag

Basic information

species Vitis vinifera
transcript Vv11s0016g01870.t01
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g01870.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: LOC_Os07g22720.1 (Oryza sativa), 5'ss of exon 17
GGCACCTTTACTGTTTCGAACTTGGGAGGACCATTTGGAGTCAAACAATTTTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTGgtatgctgcagctgatcattgccttcatcttcttcttcttcttcttccattttctgttggcctgttgcttttacctggactatcattagttttgttttacttttactaagcactgtacaattttcttgaccag
||||| || ||  | || ||||||||||| || |||||| | || |||||||||||||| || |||||||| || || |  ||| | ||  |||| |||||||      |  | ||  ||||  |  |  | |  |||  ||  |||  ||  |  || || |  | || | |     | | | |  | | |   ||||  |  | ||                         
GGCACATTCACCATATCAAACTTGGGAGGTCCTTTTGGAATTAAGCAATTTTGTGCCATCATAAATCCTCCTCAGTCGGCAATCTTGGCCATTGGTTCTGgta----ataagtcat-gttgcacttttactttgtttccactaattc-gttgccacttagcttact-ctgtaaaaataattgt-agcattatatatttatctgcatta-------------------------

upper sequence: Vv11s0016g01870.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GRMZM2G161969_T01 (Zea mays), 5'ss of exon 12
GGCACCTTTACTGTTTCGAACTTGGGAGGACCATTTGGAGTCAAACAATTTTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTGgtatgctgcagctgatcattgccttcatcttcttcttcttcttcttccattttctgttggcctgttgcttttacctggactatcattagttttgttttacttttactaagcactgtacaattttcttgaccag
|||||||| ||  | || ||||||||||| || || ||| |||||||||| |||||||| || |||||||| || || |  ||  | ||  |||| |||||||    |  || || ||||                ||  ||| |    |    || ||  || |||||  |   ||||  |  |  |||  | |||| | ||||   | ||||   |               
GGCACCTTCACGATATCAAACTTGGGAGGTCCCTTCGGAATCAAACAATTCTGTGCCATCATAAATCCTCCTCAGTCAGCAATTTTGGCTATTGGTTCTGgtaatgagttgcagaacatt----------------tccacttatatgctagcatgctgctctattgctcatgtgtgga--agtaacagtagtattttgcgtttat--aacacttccctg-------------

upper sequence: Vv11s0016g01870.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: PP1S78_56V6.1 (Physcomitrella patens), 5'ss of exon 15
GGCACCTTTACTGTTTCGAACTTGGGAGGACCATTTGGAGTCAAACAATTTTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTGgtatg-ctgcagctgatcattgccttcatcttcttcttcttcttcttccattttctgttggcctgttgcttttacctggactatcattagttttgttttacttttactaagcactgtacaattttcttgaccag
|| || |||||  | || || ||||||||||| |||||  | |||||||||||||| || ||||||||||| ||| | | ||| || || |||||| || ||| | ||     | |||      ||  | ||  | ||  ||||    | ||     |    | |    |        || |  ||||      | ||||                                  
GGAACATTTACAATCTCCAATTTGGGAGGACCTTTTGGGATTAAACAATTTTGTGCTATCATCAATCCTCCTCAAGCAGCCATTCTTGCTGTTGGGACTAgtaagtctttttttaatcccctgattagtttttgtgttactctttgagctttcaggatctttcaggacgtgcaggtaagagtcacattcaagcaggttta----------------------------------

upper sequence: Vv11s0016g01870.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: EFJ28117 (Selaginella moellendorffii), 5'ss of exon 12
GGCACCTTTACTGTTTCGAACTTGGGAGGACCATTTGGAGTCAAACAATTTTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTGgtatgctgcagctgatcattgccttcatcttcttcttcttcttcttccattttctgttggcctgttgcttttacctggactatcattagttttgttttacttttactaagcactgtacaattttcttgaccag
||||| || || || ||||||||||| |||||||||||  |||||||||||||||| || |||||||| || || ||  |||| || || || ||  |  ||| | |      | ||   | |  ||| | |    | |  |   ||     ||  || |  ||| |                                                                  
GGCACGTTCACGGTCTCGAACTTGGGTGGACCATTTGGTATCAAACAATTTTGTGCTATCATCAATCCGCCACAGTCGTGCATTCTTGCCGTCGGCACGAgtaagttttcaacg-tctcaggcgccatttcccaactttgatatatcttcgatcgttttgtttgtag------------------------------------------------------------------

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|110364343|gb|EC923926.1|EC923926
EST:     TTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTG                         CTGAGAAGAGGGTAATACCTGGTGTGGGTCCTGACCAATTCAAGTATGCTT
genomic: TTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTGgtatgctgca ... tcttgaccagCTGAGAAGAGGGTAATACCTGGTGTGGGTCCTGACCAATTCAAGTATGCTT
EST: gi|110361992|gb|EC925498.1|EC925498
EST:     TTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTG                         CTGAGAAGAGGGTAATACCTGGTGTGGGTCCTGACCAATTCAAGTATGCTT
genomic: TTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTGgtatgctgca ... tcttgaccagCTGAGAAGAGGGTAATACCTGGTGTGGGTCCTGACCAATTCAAGTATGCTT
EST: gi|30131574|gb|CB916913.1|CB916913
EST:     TTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTG                         CTGAGAAGAGGGTAATACCTGGTGTGGGTCCTGACCAATTCAAGTATGCTT
genomic: TTGTGCCATAATCAATCCTCCCCAATCCGGCATCCTCGCAGTTGGGTCTGgtatgctgca ... tcttgaccagCTGAGAAGAGGGTAATACCTGGTGTGGGTCCTGACCAATTCAAGTATGCTT