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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAATCATCAAAATCTTTATTTACGCAATTGCTGAACTCCCTTTTCCGTGCACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGGgtaagcatgcccaacaaagatttgattgtaattttgatttacagaaattcttgatgctaatcattcttttgtttcttttgctcttgtgtag

Basic information

species Vitis vinifera
transcript Vv16s0050g02480.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0050g02480.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os06g06440.1 (Oryza sativa), 5'ss of exon 4
TCAATCATCAAAATCTTTATTTACGCAATTGCTGAACTCCCTTTTCCGTGCACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGGgtaagcatgcccaa-caaagatttgattgtaattttgatttacagaaattcttgatgctaatca-ttcttttgtttcttttgctcttgtgtag
 ||  | |||| ||| |||||| | ||  | || ||||| || ||||||||||||||||| |||| ||| ||||| |||||||||||| || ||||  ||||||| |  || || || |  |   | || ||   |||| ||    | |||    | |   | |    ||| | ||  |    |||  |||||
GCAGACTTCAAGATCCTTATTTTCCCAGCTACTTAACTCACTGTTCCGTGCACCTATGTCATTTTTTGATTCTACTCCTCTAGGAAGGGTATTGAGCCGGgtaagaactcctaaacatatgtgaaagtggaaagctgatatattacagttccatttacatttgaacaatttcgattggtgctttctcatgtag

upper sequence: Vv16s0050g02480.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os11g05700.1 (Oryza sativa), 5'ss of exon 3
TCAATCATCAAAATCTTTATTTACGCAATTGCTGAACTCCCTTTTCCGTGCACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGGgtaagcatgcccaacaaagatttgattgtaattttgatttacagaaattcttgatgctaatcattcttttgtttcttttgctcttgtgtag
 ||  | |||| ||| |||||| ||||| | || ||||| || ||||||||||||||||  || ||||| ||||| |||||||||||| || ||||  ||||||| |  |  ||   | || |||     |||| |||       | |  | |||     | | |  ||  || ||  |||          
GCAGACTTCAAGATCCTTATTTTCGCAACTACTTAACTCACTGTTCCGTGCACCTATGTGCTTCTATGATTCTACTCCTCTAGGAAGGGTATTGAGCCGGgtaagaaatcttaaagcatatgtga--aacatttggatactttcgattagtggat-----taaattgttgattcctcatgcag--------

upper sequence: Vv16s0050g02480.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G111903_T02 (Zea mays), 5'ss of exon 6
TCAATCATCAAAATCTTTATTTACGCAATTGCTGAACTCCCTTTTCCGTGCACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGGgtaagcatgcccaacaaagatttgattgtaattttgatttacagaaattcttgatgctaatcattcttttgtttcttttgct---cttgtgtag-------
  |  |||||| ||| |||||| | || || || |||||  | ||||||||||| ||||| |||||||| ||||| ||||| ||||| ||||| ||  ||||||| || |  || | | ||| | |  |     |||  || |   | |  ||  | |  |  |   ||     |    | |   ||||   |        
CAAGACATCAAGATCCTTATTTTCTCAGTTACTAAACTCATTATTCCGTGCACCAATGTCCTTTTATGATTCTACCCCTCTTGGAAGAATACTTAGCCGGgtaaggattcttaaaacaaatt-gttaatctccctgagatatattgagtagtgggggtggttgtcacttgccacccaaagttcaacttgcacatggtacat

upper sequence: Vv16s0050g02480.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AC206266.3_FGT001 (Zea mays), 5'ss of exon 1
TCAATCATCAAAATCTTTATTTACGCAATTGCTGAACTCCCTTTTCCGTGCACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGGgtaagcatgcccaacaaagatttgattgtaattttgatttacagaaattcttgatgctaatcattcttttgtttcttttgct---cttgtgtag-------
  |  |||||| ||| |||||| |  | || || |||||  | ||||||||||| ||||| |||||||| ||||| ||||| ||||| ||||| ||  ||||||| || |  || | | ||| | |  |     |||  || |   | |  ||  | |  |  |   ||     |    | |   ||||   |        
CAAGACATCAAGATCCTTATTTTCTAAGTTACTCAACTCATTATTCCGTGCACCAATGTCCTTTTATGATTCTACCCCTCTTGGAAGAATACTTAGCCGGgtaaggattcttaaaacaaatt-gttaatctccctgagatatattgagtagtgggggtggttgtcacttgccacccaaagttcaacttgcacatggtacat

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|110713048|gb|EE088630.1|EE088630
EST:     CACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGG                         ATCTCGAATGATTTAAGTATTGTCGATCTTGATGTTCCATTCAGCTTTGTC
genomic: CACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGGgtaagcatgc ... tcttgtgtagATCTCGAATGATTTAAGTATTGTCGATCTTGATGTTCCATTCAGCTTTGTC
EST: gi|110726701|gb|EE102715.1|EE102715
EST:     CACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGG                         ATCTCGAATGATTTAAGTATTGTCGATCTTGATGTTCCATTCAGCTTTGTC
genomic: CACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGGgtaagcatgc ... tcttgtgtagATCTCGAATGATTTAAGTATTGTCGATCTTGATGTTCCATTCAGCTTTGTC
EST: gi|71860768|gb|DT009823.1|DT009823
EST:     CACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGG                         ATCTCGAATGATTTAAGTATTGTCGATCTTGATGTTCCATTCAGCTTTGTC
genomic: CACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGGgtaagcatgc ... tcttgtgtagATCTCGAATGATTTAAGTATTGTCGATCTTGATGTTCCATTCAGCTTTGTC
EST: gi|30300354|gb|CB977148.1|CB977148
EST:     CACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGG                         ATCTCGAATGATTTAAGTATTGTCGATCTTGATGTTCCATTCAGCTTTGTC
genomic: CACCTATGTCTTTTTATGACTCTACGCCTCTAGGAAGGATACTGAGTAGGgtaagcatgc ... tcttgtgtagATCTCGAATGATTTAAGTATTGTCGATCTTGATGTTCCATTCAGCTTTGTC