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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcttcattttgtttgagtaaaacatcccttttgccggaccatagtctgattcaccttttgcaatgccgctgggttcactaatcctgctcatagaaaatggtttttatgtgctgacttggttccttctgtggtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATTGCAGAGGTCTTGACCCGTCGCAATTACTTTAACACCTTTGGTGGAAACC

Basic information

species Vitis vinifera
transcript Vv08s0058g00930.t01
intron # 5
splice site 3'
intron type U2

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|33407899|gb|CF213526.1|CF213526
EST:     GGGGATTCGAGTCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAG                         GGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
genomic: GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAGgtgcttcatt ... gtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
EST: gi|30125870|gb|CB911209.1|CB911209
EST:     GTTCCTGACATAGTCACCATGGCAAAG                         GGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
genomic: GTTCCTGACATAGTCACCATGGCAAAGgtgcttcatt ... gtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
EST: gi|110362761|gb|EC926313.1|EC926313
EST:     GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAG                         GGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
genomic: GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAGgtgcttcatt ... gtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
EST: gi|71882027|gb|DT031082.1|DT031082
EST:     CTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAG                         GGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
genomic: CTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAGgtgcttcatt ... gtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
EST: gi|352795137|gb|FQ477247.1|FQ477247
EST:     GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAG                         GGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
genomic: GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAGgtgcttcatt ... gtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
EST: gi|110390213|gb|EC955113.1|EC955113
EST:     GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAG                         GGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
genomic: GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAGgtgcttcatt ... gtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
EST: gi|33407479|gb|CF213106.1|CF213106
EST:     GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAG                         GGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
genomic: GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAGgtgcttcatt ... gtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
EST: gi|110380642|gb|EC945925.1|EC945925
EST:     GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAG                         GGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
genomic: GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAGgtgcttcatt ... gtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
EST: gi|33409685|gb|CF215312.1|CF215312
EST:     GGGGATTCGAGTCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAG                         GGTATCGGATCTGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT
genomic: GGGGATTCGAATCTCAGGGCGTTGTTCCTGACATAGTCACCATGGCAAAGgtgcttcatt ... gtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctcatagaaaatggtttttatgtgctgacttggttccttctgtggtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATTGCAGAGGTCTTGACCCGTCGCAATTACTTTAACACCTTTGGTGGAAACC
                       tgctgac  putative branch site (score: 2)
                                              tactctt  putative PPT
        aaaatggtttttat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcttcattttgtttgagtaaaacatcccttttgccggaccatagtctgattcaccttttgcaatgccgctgggttcactaatcctgctcatagaaaatggtttttatgtgctgacttggttccttctgtggtactcttagGGTATCGGAAATGGCATTCCCCTTGGTGCTGTAGTAACTACTCCTGAGATTGCAGAGGTCTTGACCCGTCGCAATTACTTTAACACCTTTGGTGGAAACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA