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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactatctccattactctaaggacttgtatatggggtccgaaaatatgaaaaattaaactgacattgccaatgtggatttttgtactacagAAGGTTTTGTATTCTCCCATGGGTGAGTTTCTGATCCTCCAGCCTGAAGAGAAGCACTCTCCGCATCATCATCTCCTGCCTTCAGGCAGTGGTCTATATC

Basic information

species Vitis vinifera
transcript Vv07s0005g01240.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g01240.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G01720.1 (Glycine max), 3'ss of exon 4
gtactatctccattactctaaggacttgtatatggggtccgaaaatatgaaaaattaaact----gacattgccaatgtggatttttgtactacagAAGGTTTTGTATTCTCCCATGGGTGAGTTTCTGATCCTCCAGCCTGAAGAGAAGCACTCTCCGCATCATCATCTCCTGCCTTCAGGCAGTGGTCTATATC
|||   |     ||  || ||    ||  |  |||     |||| |      |  ||||       |      |   ||| ||| || |||| |||||| |  | ||| | || |||||| |  | ||||| || |||||||| ||||||   || ||    |||||||||||||| |||||||||||||||||||
gtaaagttctggtt-ttcaaaaagttttgaagtggataaagaaatttctttcatataaatctctgaatgacttcttcgtgaattattttactgcagAAGCTACTATATGCACCAATGGGTAATCTGCTGATTCTGCAGCCTGATGAGAAGTTTTCACCAAGCCATCATCTCCTGCCATCAGGCAGTGGTCTATATC

upper sequence: Vv07s0005g01240.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G40270.1 (Glycine max), 3'ss of exon 4
----gtactatctcca---ttactctaaggacttgtatatggggtccgaaaatatgaaaaattaaactgacattg--ccaatgtggatttttgtactacagAAGGTTTTGTATTCTCCCATGGGTGAGTTTCTGATCCTCCAGCCTGAAGAGAAGCACTCTCCGCATCATCATCTCCTGCCTTCAGGCAGTGGTCTATATC
     || |||   ||   |||| ||         ||||     | |     |||    |  |  | | |  |     |   ||| || ||| |||| |||||  | || ||| | || ||||| ||  | ||||| |||||||| || |||||    || ||   |||||||||||| || |||||||||||||||||||
gaatttattataaacaaatttacacttctagtacatatagcaatttcttttgtatttctagcttcattcaattcaattcttagtgaatcttt-tactgcagAAACTATTATATGCACCAATGGGAGAACTGCTGATTCTCCAGCCAGATGAGAATTTTTCACCAAGTCATCATCTCCTACCCTCAGGCAGTGGTCTATATC

upper sequence: Vv07s0005g01240.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G37660.1 (Glycine max), 3'ss of exon 4
----gtactatctccattactctaa-ggacttgta--tatggggtccgaaaatat-gaaaaattaaactgacattgccaatgtggatttttgtactacagAAGGTTTTGTATTCTCCCATGGGTGAGTTTCTGATCCTCCAGCCTGAAGAGAAGCACTCTCCGCATCATCATCTCCTGCCTTCAGGCAGTGGTCTATATC
        ||     ||||| ||||  |  || ||   ||    |  | |  | | |    ||| || | |         ||  || | || |||| |||||| | || ||| | || ||||| ||  | |||||||||||||| || |||||    || ||   ||||||||||||||| ||||||||||| |||||| 
tttaaccataaaataattacactaatagtgttatagccatttcttttgtatttttagccgcattcaattcaatcaattcttggtgaatcttttactgcagAAGCTATTATATGCACCGATGGGAGAACTGCTGATCCTCCAGCCAGATGAGAATTTTTCACCAAGTCATCATCTCCTGCCCTCAGGCAGTGGACTATATA

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|110372615|gb|EC936799.1|EC936799
EST:     TCAAGGCTGTTAATGGGAATTTTCGGAATCATCCTTGTCTGAATAACCAG                         AAGGTTTTGTATTCTCCCATGGGTGAGTTTCTGATCCTCCAGCCTGAAGAG
genomic: TCAAGGCTGTTAATGGGAATTTTCGGAATCATCCTTGTCTGAATAACCAGgtactatctc ... tgtactacagAAGGTTTTGTATTCTCCCATGGGTGAGTTTCTGATCCTCCAGCCTGAAGAG
EST: gi|110375885|gb|EC940908.1|EC940908
EST:     TCAAGGCTGTTAATGGGAATTTTCGGAATCATCCTTGTCTGAATAACCAG                         AAGGTTTTGTATTCTCCCATGGGTGAGTTTCTGATCCTCCAGCCTGAAGAG
genomic: TCAAGGCTGTTAATGGGAATTTTCGGAATCATCCTTGTCTGAATAACCAGgtactatctc ... tgtactacagAAGGTTTTGTATTCTCCCATGGGTGAGTTTCTGATCCTCCAGCCTGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccgaaaatatgaaaaattaaactgacattgccaatgtggatttttgtactacagAAGGTTTTGTATTCTCCCATGGGTGAGTTTCTGATCCTCCAGCCTGAAGAGAAGCACTCTCCGCATCATCATCTCCTGCCTTCAGGCAGTGGTCTATATC
                    aactgac  putative branch site (score: 2)
                                         tttttgt  putative PPT
     aaatatgaaaaattaa  TA-rich tract