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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtttaattaaacatgaccatcaatttagaaatactctgctttctccatttgttgcctcactgccctttgctcttgcatttaagttaaggtgtaactggttcaaaattttcaatattgttagGCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGTCTAGCAGCAAAAGTTGATGCTATCAAAGACACTCTTGATAGTGATGAGC

Basic information

species Vitis vinifera
transcript Vv09s0002g03930.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
------gtactgtt-taattaaacatgaccatcaatttagaaatactctgctttctccatttgttgcctca---ctgccctttgctc-ttgcatttaagttaaggtgtaactggttcaaaattttcaa----------tattgttagGCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGTCTAGCAGCAAAAGTTGATGCTATCAAAGACACTCTTGATAGTGATGAGC
       |  |||| ||| |          |  |||  |  |||  | |||||  |      |     | |     |    ||||||  ||  || |  | || ||    |||| |    || || ||            |||| |||| || ||||||||||||||||| |||||||| ||||||||  |  || | || ||||| | |||||| || ||||| ||||  || || | ||||||||
gttagtctgttgttataactgctttgagatagaaatagattaatgtt-tgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC

upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G083716_T04 (Zea mays), 3'ss of exon 9
gtactgtttaattaaacatgaccatcaatttagaaatactctgctttctccatttgttgcctcactgccctttgctcttgcatttaagttaaggtgtaactggttcaaaattttcaatattgttagGCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGTCTAGCAGCAAAAGTTGATGCTATCAAAGACACTCTTGATAGTGATGAGC
        | | |  | |   || |   | | |||| | ||||  || ||   |   | |    |||    || |   || ||      ||| ||     || |||    | ||||        |||| |||||||||||||||||||| |||||||| ||||||||  | ||||| || ||||| ||||| || || ||||| || || || || |  || ||||
-------atcactccatact-ccttgcttcttgaaacattctgtattttctgctgaattctcttctgg---ttacatatgtatc---actaaagt-----tgtttctttctcttca-------cagGCTGCCGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTTTGCGGCTTGCAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGC

upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G095252_T02 (Zea mays), 3'ss of exon 4
----------gtactgtttaattaaacatgaccatca-atttagaaatactctgc------tttctccatttgttgcctcactgccctttgctcttgc---atttaagttaaggtgtaactggttcaaaattttcaatattgtt---agGCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGTCTAGCAGCAAAAGTTGATGCTATCAAAGACACTCTTGATAGTGATGAGC
          | | |  ||||  |       |   || ||||| |  | ||          |   ||| ||  |     ||      |||| ||| |    | || | ||  | | ||  | | | ||| |  ||  | || ||   |||| || ||||||||||||||||| |||||||| || |||||  | ||||| || ||||| ||||| ||||| ||||| || || || || |  |||||||
gtaagttgtcggagtaattaaccattttgtgctgccagatttatatttgcttcatgaggaatacttcctttgatcagaacatataggtttgttctagttcaactttattttggttatatatcgctaaaattgctcctttttctttatagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGATGCACCCTTTTGCGGCTTGCAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGC

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|110363342|gb|EC926920.1|EC926920
EST:     AACTTAAAGAAAAGAAACTGAGAGTGGAGGATGCCCTTAATGCAACAAAG                         GCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGT
genomic: AACTTAAAGAAAAGAAATTGAGAGTGGAGGATGCCCTTAATGCAACAAAGgtactgttta ... atattgttagGCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGT
EST: gi|71866122|gb|DT015177.1|DT015177
EST:     AACTTAAAGAAAAGAAACTGAGAGTGGAGGATGCCCTTAATGCAACAAAG                         GCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGT
genomic: AACTTAAAGAAAAGAAATTGAGAGTGGAGGATGCCCTTAATGCAACAAAGgtactgttta ... atattgttagGCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGT
EST: gi|37188483|gb|CF607832.1|CF607832
EST:     AACTTAAAGAAAAGAAACTGAGAGTGGAGGATGCCCTTAATGCAACAAAG                         GCAGCCGTTGAGGAAGGT
genomic: AACTTAAAGAAAAGAAATTGAGAGTGGAGGATGCCCTTAATGCAACAAAGgtactgttta ... atattgttagGCAGCCGTTGAGGAAGGT
EST: gi|77586832|gb|DV222559.1|DV222559
EST:     AACTTAAAGAAAAGAAACTGAGAGTGGAGGATGCCCTTAATGCAACAAAG                         GCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGT
genomic: AACTTAAAGAAAAGAAATTGAGAGTGGAGGATGCCCTTAATGCAACAAAGgtactgttta ... atattgttagGCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctcttgcatttaagttaaggtgtaactggttcaaaattttcaatattgttagGCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGTCTAGCAGCAAAAGTTGATGCTATCAAAGACACTCTTGATAGTGATGAGC
                      gtgtaac  putative branch site (score: 3)
                                ttcaaaattttcaata  TA-rich tract