Sequence
atgc intronic sequence ATGC exonic sequence...gttgtattgcaaattcagtgttatgttgtttggtggtgggacttttccgttctttttcttttatcatttaatttttctatctctgattctttaattatagGATTATGATCCATATGAAGAAAATCCTGGAACTGCTCCTTTTAGTGAGCCTGAGACTCAAATAATGCGGAAACTCTCCATATCATTTGATCCACATATAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0122g01410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g02710.2 (Oryza sativa), 3'ss of exon 6
gttgtattgcaaatt-cagtgttatgttgttt-ggtggtgggacttttccgttctttttcttttatcatttaatttttctatctctgattctttaattatagGATTATGATCCATATGAAGAAAATCCTGGAACTGCTCCTTTTAGTGAGCCTGAGACTCAAATAATGCGGAAACTCTCCATATCATTTGATCCACATATAT
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gtta-attgctgattgttggattacttaacctcagttatgcaaatgtagtgtacatcatatca-atattttgagctatatatgcattttacctgtattatagGACTACGACCCATATGAGGAAAATCCTGGCACTGCTCCTTTTAGCGAACCTGAGGCTCAGATCATGCGAGAGCTATCCAAGTCATTTAAACCACATATGT
upper sequence: Vv18s0122g01410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G02070.1 (Glycine max), 3'ss of exon 5
gttgtattgcaaattcagtgttatgttgtttggtggtgggacttttccgttctttttcttttatcatttaatttttctatctctgattctttaatta-tagGATTATGATCCATATGAAGAAAATCCTGGAACTGCTCCTTTTAGTGAGCCTGAGACTCAAATAATGCGGAAACTCTCCATATCATTTGATCCACATATAT
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agtgtatggtgtgg-cactcttttatcttttcgagaaatatatcaaatgtttaatattttgaagcatctctttttcattttcattattcacaaataaatagGATTATGATCCATATGAGGAGAATCCTGGAATTGCTCCATTCAGTGAGCCTGAAAGTCAAATTATGCGGAAACTTGCCATATCTTTTGAACCACATCTAT
upper sequence: Vv18s0122g01410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G42320.1 (Arabidopsis thaliana), 3'ss of exon 6
gttgtattgcaaattcagtgttatgttgtttggtggtgggacttttccgttctttttcttttatcatttaatttttctatctctgattctttaattatagGATTATGATCCATATGAAGAAAATCCTGGAACTGCTCCTTTTAGTGAGCCTGAGACTCAAATAATGCGGAAACTCTCCATATCATTTGATCCACATATAT
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-gtacttcttcacctcactgcactttcctttcccttcaata----tcccttgttaatgtgtcacgaacctttgtccttgttttgttctcggcgtttccagGATTATGATCCATCTGAAGAGAATCCAGGAACTGCTCCGTTTAGTGAGCCCGAAACTCAAATAATGCGGAAGCTAGCCATATCATTTGATCCTCACATATMapped 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|110419420|gb|EC985642.1|EC985642EST: GTGTTGATCTCAATCGGAATTGGAGTGTAGACTGGGGCAAAAAGGAGAAG GATTATGATCCATATGAAGAAAATCCTGGAACTGCTCCTTTTAGTGAGCCT
genomic: GTGTTGATCTCAATCGGAATTGGAGTGTAGACTGGGGCAAAAAGGAGAAGgtttgttatg ... ttaattatagGATTATGATCCATATGAAGAAAATCCTGGAACTGCTCCTTTTAGTGAGCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccgttctttttcttttatcatttaatttttctatctctgattctttaattatagGATTATGATCCATATGAAGAAAATCCTGGAACTGCTCCTTTTAGTGAGCCTGAGACTCAAATAATGCGGAAACTCTCCATATCATTTGATCCACATATAT
ctttaat putative branch site (score: 4)
tttttctatctctgat CT-rich tract
atttaatttttctatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtattgcaaattcagtgttatgttgtttggtggtgggacttttccgttctttttcttttatcatttaatttttctatctctgattctttaattatagGATTATGATCCATATGAAGAAAATCCTGGAACTGCTCCTTTTAGTGAGCCTGAGACTCAAATAATGCGGAAACTCTCCATATCATTTGATCCACATATAT
- - - - - - - - - - - - - tgtttgg
- - - - - - - - - - - - - - - - -tggtggg