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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtatgcttctgtctaccttcaatagaagagggaggtatattcaatttattaattatgactgactcctctcttctcatgctagCTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTTGTGTTTCTCTCGCTGTATGTTCATTGATAATGCTCTATAGATGTAGTAG

Basic information

species Vitis vinifera
transcript Vv03s0088g01260.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G06860.1 (Glycine max), 3'ss of exon 6
--------------------------------gtgggtatgcttctgtctaccttcaatagaagagggaggtatattcaatttattaattatgactgactcctctcttctcatgctagCTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTTGTGTTTCTCTCGCTGTATGTTCATTGATAATGCTCTATAGATGTAGTAG
                                 |    |  |   |||  ||     |   |  |     || | ||    | | | |   ||| ||| |  | ||  || |||| ||||||||| ||||  ||| ||||||||||||||||||| |||| |||||      |||||   |||||  ||||  |||| ||| ||||||  || |||||
gtatgttaaaaattgtatgccaatttacaatactacacacacacatgtgcactcattagtcattacctgagttttttgtgatgacttaccttgattgaatattttccactaatgccagCTCCTAACCTTAAAAAGATTACTGCTGTTGTTGGACTTTGGGCATGGACAGCGCTTTCTTCGGCTGTTGGTTCCCTGATTATGTTCTATAAGTGCAGTAG
















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|351049556|gb|FQ429178.1|FQ429178
EST:     TTGCATTGCAATAATTGTTATTATCCTCTTCATCAACACAGTTCTTGTAG                         CTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTT
genomic: TTGCATTGCAATAATTGTTATTATCCTCTTCATCAACACAGTTCTTGTAGgtgggtatgc ... ctcatgctagCTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTT
EST: gi|351029081|gb|FQ435281.1|FQ435281
EST:     TTGCATTGCAATAATTGTTATTATCCTCTTCATCAACACAGTTCTTGTAG                         CTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTT
genomic: TTGCATTGCAATAATTGTTATTATCCTCTTCATCAACACAGTTCTTGTAGgtgggtatgc ... ctcatgctagCTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTT
EST: gi|351030865|gb|FQ438901.1|FQ438901
EST:     TTGCATTGCAATAATTGTTATTATCCTCTTCATCAACACAGTTCTTGTAG                         CTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTT
genomic: TTGCATTGCAATAATTGTTATTATCCTCTTCATCAACACAGTTCTTGTAGgtgggtatgc ... ctcatgctagCTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTT
EST: gi|351018912|gb|FQ426411.1|FQ426411
EST:     TTGCATTGCAATAATTGTTATTATCCTCTTCATCAACACAGTTCTTGTAG                         CTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTT
genomic: TTGCATTGCAATAATTGTTATTATCCTCTTCATCAACACAGTTCTTGTAGgtgggtatgc ... ctcatgctagCTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTT
EST: gi|161717421|gb|FC068873.1|FC068873
EST:     TTGCATTGCAATAATTGTTATTATCCTCTTCATCAACACAGTTCTTGTAG                         CTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTT
genomic: TTGCATTGCAATAATTGTTATTATCCTCTTCATCAACACAGTTCTTGTAGgtgggtatgc ... ctcatgctagCTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagggaggtatattcaatttattaattatgactgactcctctcttctcatgctagCTCCTAATCTTACGAAGGTTACTGCTGTTGTTGGACTCTGGGGATGGATTTGTGTTTCTCTCGCTGTATGTTCATTGATAATGCTCTATAGATGTAGTAG
                             gactgac  putative branch site (score: 2)
                                   ctcctctcttctcatg  CT-rich tract
        tatattcaatttatta  TA-rich tract