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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGTGACCAAAATACTGGTGAGATTTGCTTACATACACTCCAACGCATCGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatcttattccgcttttcaatctgaattactccaagcatgagatcattttattactttcaagaagtaacacaacttatacaaccagtttgttagt...

Basic information

species Vitis vinifera
transcript Vv01s0011g04740.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g04740.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA10G41010.1 (Glycine max), 5'ss of exon 2
GTATGTGACCAAAATACTGGTGAGATTTGCTTACATACACTCCAACGCATCGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatcttattccgcttttcaatctgaattactccaagcatgagatcattttattactttcaagaagtaacacaactt-atacaaccagtttgttagt------
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GCATGTGACCAAGGTTGCTGTGAGGTTTTCTTACATACACACCAATGCTTCCTATGCGTTTGATGCAACCACAGAGCCTGGCTACGTCTATCATTGTCATgtaagtatact--taccctttcttgtctaggtcat---aggaatgt--ttcttctagtttttttaaatcttatttcagttttatattagcacatgcatggtgtagat
















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|110703506|gb|EE080412.1|EE080412
EST:     CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCAC                         ATTTTGGATCATGAAGACAATGCGATGATGAGGCCCTTGNAAGT-CATAAA
genomic: CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatct ... aaaaatgcagATTTTGGATCATGAAGACAATGCGATGATGAGACCCTTG-AAGTTCATCAA
EST: gi|30127864|gb|CB913203.1|CB913203
EST:     CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCAC                         ATTTTGGATCATGA
genomic: CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatct ... aaaaatgcagATTTTGGATCATGA
EST: gi|30328426|gb|CD011688.1|CD011688
EST:     CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCAC                         ATTTTGGATCATGAAGACAATGCGATGATGAGACCCTTGAAGTTCATCAAA
genomic: CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatct ... aaaaatgcagATTTTGGATCATGAAGACAATGCGATGATGAGACCCTTGAAGTTCATCAAA
EST: gi|30126378|gb|CB911717.1|CB911717
EST:     CGTATCCGTTCGATGCATCCGCAGAGGCTGGGTACCTGTACCATTGCCAC                         ATTTTGGATCATGAAGACAATGGCGATGATGAGACCCTTGAAGATCATCAA
genomic: CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatct ... aaaaatgcagATTTTGGATCATGAAGACAATG-CGATGATGAGACCCTTGAAGTTCATCAA
EST: gi|27579025|gb|CB001720.1|CB001720
EST:     CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCAC                         ATTTTGGATCATGAAGACAATGCGATGATGAGACCCTTGAAGTTCATCAAA
genomic: CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatct ... aaaaatgcagATTTTGGATCATGAAGACAATGCGATGATGAGACCCTTGAAGTTCATCAAA
EST: gi|110702347|gb|EE080959.1|EE080959
EST:     CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCAC                         ATTTTGGATCATGAAGACAATGCGATGATGAGGCCCTTGAAGTTCATAAAA
genomic: CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatct ... aaaaatgcagATTTTGGATCATGAAGACAATGCGATGATGAGACCCTTGAAGTTCATCAAA
EST: gi|34549305|gb|CF517537.1|CF517537
EST:     CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACCTGTACCATTGCCAC                         ATTTTGGATCATGAAGACAATGCGATGATGAGACCCTTGAAGTTCATCAAA
genomic: CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatct ... aaaaatgcagATTTTGGATCATGAAGACAATGCGATGATGAGACCCTTGAAGTTCATCAAA
EST: gi|110710246|gb|EE086413.1|EE086413
EST:     CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCAC                         ATTTTGGATCATGAAGACAATGCGATGATGAGGCCCTTGAAGTTCATAAAA
genomic: CGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatct ... aaaaatgcagATTTTGGATCATGAAGACAATGCGATGATGAGACCCTTGAAGTTCATCAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATGTGACCAAAATACTGGTGAGATTTGCTTACATACACTCCAACGCATCGTATCCGTTCGATGCATCCGCAGAGCCTGGTTACGTGTACCATTGCCACgtaagtatcttattccgcttttcaatctgaattactccaagcatgagatcattttattactttcaagaagtaacacaacttatacaaccagtttgttagt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagtaa