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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGTGTCTGAGGACGAAGGACGACGGCGCTGTCGCTCTCGATTGGGTTTCCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttcttgtttttcagtaatgtacttcatgctgcttcatgtatgagtatttgtgctctgtttggttgtcgagaaactgtagaaaggacacttggaat...

Basic information

species Vitis vinifera
transcript Vv02s0025g02550.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0025g02550.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA12G01650.1 (Glycine max), 5'ss of exon 1
GGAGTGTCTGAGGACGAAGGACGACGGCGCTGTCGCTCTCGATTGGGTTTCCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttcttgtttttcagtaatgtacttcatgctgcttcatgtatgagtatttgtgctctgtttggttgtcgagaaactgtagaaaggacacttggaat
 ||||| || |||||  |||||| |||||| ||||| ||||| ||||| ||||| |||||||||||  |     |||| || ||  | |||||  |  ||||       |||| |  |  ||   |    |   |  || || |   | | |||      ||||    |||  || || |||  |               
CGAGTGCCTCAGGACCCAGGACGGCGGCGCCGTCGCCCTCGACTGGGTCTCCGGCGACGACCGTCGCTTGCCCCCCGATTCTCCACTCCTCATCTTGTTGgt------ctgttct--aacaaaaaaaaaaaactttttttatcttccaattttt------tgttaa--tgtgaaggaaatgtgcag--------------
















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|28961984|gb|CB341018.1|CB341018
EST:     CCGGTGACGACCGTCAGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTG                         CCAGGTCTAACAGGAGGGAGTGAAGACAGTTATGTGAGGCATTTGCTGGTC
genomic: CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttctt ... atggttgcagCCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAGGCATTTGCTGGTC
EST: gi|161707677|gb|FC057417.1|FC057417
EST:     CCGGTGACGACCGTCAGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTG                         CCAGGTCTAACAGGAGGGAGTGAAGACAGTTATGTGAG
genomic: CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttctt ... atggttgcagCCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAG
EST: gi|38516575|gb|CF983750.1|CF983750
EST:     CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTG                         CCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAGGCATTTGCTGGTC
genomic: CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttctt ... atggttgcagCCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAGGCATTTGCTGGTC
EST: gi|37186405|gb|CF605758.1|CF605758
EST:     CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTG                         CCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAGGCATTTGCTGGTC
genomic: CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttctt ... atggttgcagCCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAGGCATTTGCTGGTC
EST: gi|38516609|gb|CF983784.1|CF983784
EST:     CCGGTGACGACCGTCAGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTG                         CCAGGTCTAACAGGAGGGAGTGAAGACAGTTATGTGAGGCATATGCTGGTC
genomic: CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttctt ... atggttgcagCCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAGGCATTTGCTGGTC
EST: gi|71864129|gb|DT013184.1|DT013184
EST:     CCGGTGACGACCGTCAGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTG                         CCAGGTCTAACAGGAGGGAGTGAAGACAGTTATGTGAGGCATTTGCTGGTC
genomic: CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttctt ... atggttgcagCCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAGGCATTTGCTGGTC
EST: gi|71866312|gb|DT015367.1|DT015367
EST:     CCGGTGACGACCGTCAGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTG                         CCAGGTCTAACAGGAGGGAGTGAAGACAGTTATGTGAGGCATTTGCTGGTC
genomic: CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttctt ... atggttgcagCCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAGGCATTTGCTGGTC
EST: gi|110372983|gb|EC937181.1|EC937181
EST:     CCGGTGACGACCGTCAGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTG                         CCAGGTCTAACAGGAGGGAGTGAAGACAGTTATGTGAGGCATTTGCTGGTC
genomic: CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttctt ... atggttgcagCCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAGGCATTTGCTGGTC
EST: gi|349825263|gb|FQ417984.1|FQ417984
EST:     CCGGTGACGACCGTCAGCTTGGAGCCGACTCCCCGGTTCTCATTCTACT-                         ---GGTCTAACAGGAGGGAGTGAAGACAGTTATGTGAGGCATTTGCTGGTC
genomic: CCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttctt ... atggttgcagCCAGGTCTAACAGGAGGGAGTGAAGATAGTTATGTGAGGCATTTGCTGGTC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAGTGTCTGAGGACGAAGGACGACGGCGCTGTCGCTCTCGATTGGGTTTCCGGTGACGACCGTCGGCTTGGAGCCGACTCCCCGGTTCTCATTCTACTGgtaatttcttgtttttcagtaatgtacttcatgctgcttcatgtatgagtatttgtgctctgtttggttgtcgagaaactgtagaaaggacacttggaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaggaca