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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattgtctgctacattaagcatgtgacacaataatggataatctaggatgtgcattggaaattttgaatattttcctggatatatatgtgttgcagTTACCAGATTGTCTCCGCATTATTGGATATTTACGTCGAATAGGAGTATTTAGTGAGTTTGAAATGCGTTTACAG

Basic information

species Vitis vinifera
transcript Vv04s0008g01350.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G22880.1 (Glycine max), 3'ss of exon 4
gtatat-tgtctgctacattaagcatgtgacacaataatggataatctaggatgtgcattggaaattt-tgaatattttcctggatatatatgtgttg--cagTTACCAGATTGTCTCCGCATTATTGGATATTTACGTCGAATAGGAGTATTTAGTGAGTTTGAAATGCGTTTACAG
|| |||        || ||| |  |||  |   |||      | || |    ||   | ||    | | || |  || |  |   |  || |   ||    |||||||||| || || |||||||||||||||||||| |||||||||||||||||||||| || ||||||||| | |
gtttatgcagtgattatatttaatatgcaaagaaatgccacttgatttttcttgaaaaatgtttctgtatgtagtttcttattactgcatcttcctttgctagTTACCAGAATGCCTTCGCATTATTGGATATTTACGGCGAATAGGAGTATTTAGTGAGTATGGAATGCGTTTGCTG

upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G04920.1 (Glycine max), 3'ss of exon 4
--gtatattgtctgctacattaagcatgtgacacaataatggataatctaggatgtgcattggaaattt-tgaatattttcctggatatatatgtgttg--cagTTACCAGATTGTCTCCGCATTATTGGATATTTACGTCGAATAGGAGTATTTAGTGAGTTTGAAATGCGTTTACAG
   ||||  ||    || ||| |  |||  |   |||      | || |    ||   | ||    | | || |  || |  |   | ||| |   ||    ||||||| || || || |||||||||||||||||||| |||||||||||||||||||||| || ||||||||| | |
gtttatacagtg-attatatttaatatgcaaagaaatgccacttgatttttcttgaaaaatgtttctgtatgtagtttcttattactgtatcttcctttgctagTTACCCGAATGCCTTCGCATTATTGGATATTTACGGCGAATAGGAGTATTTAGTGAGTATGGAATGCGTTTGCTG

upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G11980.1 (Arabidopsis thaliana), 3'ss of exon 5
---------gtatattgtctgctacattaagcatgtgacacaataatggataatctaggatgtgcattggaaattttgaatattttcctggatatatatgtgttgcagTTACCAGATTGTCTCCGCATTATTGGATATTTACGTCGAATAGGAGTATTTAGTGAGTTTGAAATGCGTTTACAG
         | |||  || |  ||  ||  | ||     | | ||  | ||  |  ||  |    ||    ||   | ||||| |   || ||   | | |||| ||||||||||| |||||||||||||||||||| ||||| |||||||| || ||| | |||| ||||||||| ||||||
gtttcatgtgaatacagttt-ttatttttggtattcagta-actatggaatggttaagcttagcaatcaagaaggctcaatatctggttg-atgc-tctctgtttcagTTACCAGAATGTCTCCGCATTATTGGATACTTACGCCGAATAGGTGTCTTTGGCGAGTATGAAATGCGATTACAG

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|110389066|gb|EC953878.1|EC953878
EST:     CCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTG                         TTACCAGATTGTCTCCGCATTATTGGATATTTACGTCGAATAGGAGTATTT
genomic: CCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTGgtatattgtc ... tgtgttgcagTTACCAGATTGTCTCCGCATTATTGGATATTTACGTCGAATAGGAGTATTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaggatgtgcattggaaattttgaatattttcctggatatatatgtgttgcagTTACCAGATTGTCTCCGCATTATTGGATATTTACGTCGAATAGGAGTATTTAGTGAGTTTGAAATGCGTTTACAG
            attggaaattttgaat  TA-rich tract