Sequence
atgc intronic sequence ATGC exonic sequencegtatgtaaaaccctaccaaaaccctaatttttttcgttcttactattttcttcataatactgataaggcattacaacatggaagAGTGGAGGATCTGAAACAGAGGTGACATGGGAGGATCAGCAGAACATTAACAAATTCGGAAGACTAAACAACAGATTTCACGAGCTCGAAGATGAGATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0081g00080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G36840.1 (Glycine max), 3'ss of exon 1
gtat--gtaaaaccctaccaaaaccctaattttt--ttcgttcttactatt--ttcttcataatactgataaggcattac-------------aacatggaagAGTGGAGGATCTGAAACAGAGGTGACATGGGAGGATCAGCAGAACATTAACAAATTCGGAAGACTAAACAACAGATTTCACGAGCTCGAAGATGAGATCA
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gtaacaaaaaaaccctaataaatcttgagatcacactttgttatttcgacggattcatgtgaaagctgatctctttttatttattttttggggatccgaaaagGGAGGAGGCTCGGAGACGGAAGTGACATGGGAGGACCAGCAGAACATCAACAAATTCGGAAGGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCA
upper sequence: Vv14s0081g00080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G30520.1 (Glycine max), 3'ss of exon 1
gtat-gtaaaaccctaccaaaaccctaatttt--tttcgttcttactatt--ttcttcataatactgataaggca-------------ttacaacatggaa-gAGTGGAGGATCTGAAACAGAGGTGACATGGGAGGATCAGCAGAACATTAACAAATTCGGAAGACTAAACAACAGATTTCACGAGCTCGAAGATGAGATCA
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gtattgaaaaaccctaataattcttgagatcgcactttgttatttcgacggattcatgtgaaagctgatctcttttctttttctttttttgtgatccgaaaagGGGGGAGGATCTGAGACGGAAGTAACATGGGAAGACCAGCAGAACATCAACAAATTCGGAAGGTTGAATAATCGCTTTCACGAGCTTGAGGATGAGATCA
upper sequence: Vv14s0081g00080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G08780.1 (Arabidopsis thaliana), 3'ss of exon 1
gtatgtaaaaccctaccaa-aaccctaatttttttcgttcttactattttc--ttcataatactg-ataaggcattacaacat------ggaagAGTGGAGGATCTGAAACAGAGGTGACATGGGAGGATCAGCAGAACATTAACAAATTCGGAAGACTAAACAACAGATTTCACGAGCTCGAAGATGAGATCA
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gtaagaaaatcatctcgaataggagtaatttattttgttagcatcttcttcaattgatgctaatggatggttgatgatgatgttgcagGGGAGTAAGAGTGGATCTGAGATGGAGGTGACATGGGAGGACCAGCAGAACATTAATATCTTCAGCCGTCTCAACAACAGAGTCCATGACCTCGATGACG------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|110725302|gb|EE101647.1|EE101647EST: TTTTCCTCGACCCCTGCCCTCTTCGCCTTCGTCGATCAAATATGCAACAG AGTGGAGGATCTGAAACAGAGGTGACATGGGAGGATCAGCAGAACATTAAC
genomic: TTTTCCTCGACCCCAGCCCTCGTCGCCTTCATCGATCAAATATGCAACAGgtatgtaaaa ... aacatggaagAGTGGAGGATCTGAAACAGAGGTGACATGGGAGGATCAGCAGAACATTAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttcgttcttactattttcttcataatactgataaggcattacaacatggaagAGTGGAGGATCTGAAACAGAGGTGACATGGGAGGATCAGCAGAACATTAACAAATTCGGAAGACTAAACAACAGATTTCACGAGCTCGAAGATGAGATCA
tactgat putative branch site (score: 2)
tattttcttcataata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtaaaaccctaccaaaaccctaatttttttcgttcttactattttcttcataatactgataaggcattacaacatggaagAGTGGAGGATCTGAAACAGAGGTGACATGGGAGGATCAGCAGAACATTAACAAATTCGGAAGACTAAACAACAGATTTCACGAGCTCGAAGATGAGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA