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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgtagattgaacctctaggataccatttttctgatatgtatctttttcgcagaaagcttctattcctttgcttttaaatttcagcatatctttatataaatatcatttattcattaatttatttactgttatgtcttttaaatccattatgtgatactttgcatttccagAACAAACAAAATCCTGGAGTACCAAAACCAAGAATCTTTACAGTGGGTCGCCTTGATGTTGCCACAACTGGGTTGATTATTTTGACCAATGATG

Basic information

species Vitis vinifera
transcript Vv13s0019g04740.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g04740.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ07534 (Selaginella moellendorffii), 3'ss of exon 4
gtatgtgtagattgaacctctaggataccatttttctgatatgtatctttttcgcagaaagcttctattcctttgcttttaaatttcagcatatctttatataaatatcatttattcattaatttatttactgt-tatgtcttttaaatccattatgtgatactttgcatttccagAACAAACAAAATCCTGGAGTACCAAAACCAAGAATCTTTACAGTGGGTCGCCTTGATGTTGCCACAACTGGGTTGATTATTTTGACCAATGATG
                                                                                                                               ||| ||| | |   ||   | |   |  | | || ||||| |||| ||| | ||| | || || ||| || |||| || ||| |||||||||| |||||| | |||||||||||||||||  | ||  |  | || ||||| |
------------------------------------------------------------------------------------------------------------------------------gttagtgtatttcgattcggagtttgtcgtttaatcctttgtatttgcagGAAAAAAATAACCCGGGACTAACAAAGCCTAGATTCTTTACAGTCGGTCGCTTAGATGTTGCCACAACTGGTCTTATATTCGTTACGAATGACG

upper sequence: Vv13s0019g04740.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ10738 (Selaginella moellendorffii), 3'ss of exon 4
gtatgtgtagattgaacctctaggataccatttttctgatatgtatctttttcgcagaaagcttctattcctttgcttttaaatttcagcatatctttatataaatatcatttattcattaatttatttactgt-tatgtcttttaaatccattatgtgatactttgcatttccagAACAAACAAAATCCTGGAGTACCAAAACCAAGAATCTTTACAGTGGGTCGCCTTGATGTTGCCACAACTGGGTTGATTATTTTGACCAATGATG
                                                                                                                               ||| ||| | |   ||   | |   |  | | || ||||| |||| ||| | ||| | || || ||| || |||| || ||| |||||||||| |||||| | |||||||||||||||||  | ||  |  | || ||||| |
------------------------------------------------------------------------------------------------------------------------------gttagtgtatttcgattcggagtttgtcgtttaatcctttgtatttgcagGAAAAAAATAACCCGGGACTAACAAAGCCTAGATTCTTTACAGTCGGTCGCTTAGATGTTGCCACAACTGGTCTTATATTCGTTACAAATGACG
















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|30256420|gb|CB972263.1|CB972263
EST:     AAGAGTCCAAATCTGTTTTGTGCCTATTTGATGATTATTTGAAGAGTTGG                         AACAAACAAAATCCTGGAGTACCAAAACCAAGAATCTTTACAGTGGGTCGC
genomic: AAGAGTCCAAATCTGTTTTGTGCCTATTTGATGATTATTTGAAGAGTTGGgtatgtgtag ... gcatttccagAACAAACAAAATCCTGGAGTACCAAAACCAAGAATCTTTACAGTGGGTCGC
EST: gi|351017850|gb|FQ436203.1|FQ436203
EST:     AAGAGTCCAAATCTGTTTTGTGCCCATNTGATGATTATTTGAAGAGTTGG                         AACAAAACAAA-TCCTGGA
genomic: AAGAGTCCAAATCTGTTTTGTGCCTATTTGATGATTATTTGAAGAGTTGGgtatgtgtag ... gcatttccagAACAAA-CAAAATCCTGGA
EST: gi|110701324|gb|EE078768.1|EE078768
EST:     AAGAGTCCAAATCTGTTTTGTGCCTATTTGATGATTATTTGAAGAGTTGG                         AACAAACAAAATCCTGGAGTACCAAAACCAAGAATCTTTACAGTGGGTCGC
genomic: AAGAGTCCAAATCTGTTTTGTGCCTATTTGATGATTATTTGAAGAGTTGGgtatgtgtag ... gcatttccagAACAAACAAAATCCTGGAGTACCAAAACCAAGAATCTTTACAGTGGGTCGC
EST: gi|161715781|gb|FC065148.1|FC065148
EST:     AAGAGTCCAAATCTGTTTTGTGCCTATTTGATGATTATTTGAAGAGTTGG                         AACAAACAAAATCCTGGAGTACCAAAACCAAGAATCTTTACAGTGGGTCGC
genomic: AAGAGTCCAAATCTGTTTTGTGCCTATTTGATGATTATTTGAAGAGTTGGgtatgtgtag ... gcatttccagAACAAACAAAATCCTGGAGTACCAAAACCAAGAATCTTTACAGTGGGTCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttatttactgttatgtcttttaaatccattatgtgatactttgcatttccagAACAAACAAAATCCTGGAGTACCAAAACCAAGAATCTTTACAGTGGGTCGCCTTGATGTTGCCACAACTGGGTTGATTATTTTGACCAATGATG
 cattaat  putative branch site (score: 3)
                                              catttcc  putative PPT
             ttatgtcttttaaat  TA-rich tract