Sequence
atgc intronic sequence ATGC exonic sequence...tttctcttggaaatgttcttttgtagattaatgtaatttatgatatatctggggatagtaggggtattagtgttttgatatcatctttctattaatgcagCCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGGTGACAGCTACTATGAGTACTTAATTAAAGTGTGGCTTCAGCAGGGAGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os05g11850.1 (Oryza sativa), 3'ss of exon 2
----------------------tttctcttggaaatgttct---tttgtagattaatgtaatttatgatatatctggg-----gatagtaggggtattagtgttttgatatcatctttctattaatgcagCCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGGTGACAGCTACTATGAGTACTTAATTAAAGTGTGGCTTCAGCAGGGAGCT
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gtatgcattgcttgaacccttctgtgttttggcactaaattaagttcagaatatattgcattgtctaac-catcagaaaaattgatatttgaggtgattatgctctcattattgttttctat--atgcagTCCCTCCTCTGGTCAATTTAGTGGAGAAAATATTCGATTAGGATCTCGTGGTGACAGTTACTATGAATACCTATTGAAAGTATGGGTTCAGCAAGAAAGA
upper sequence: Vv10s0003g03280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G28910.2 (Glycine max), 3'ss of exon 2
tttctcttggaaatgttcttttgtagattaatgtaatttatgatatatctggggatagtaggggt--attagtgttttgatatcatctttctattaatgcagCCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGGTGACAGCTACTATGAGTACTTAATTAAAGTGTGGCTTCAGCAGGGAGCT
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--caccccaattgtttttttttgtcacctttaggcttgtgtcttcttttcttttctcgtcattttctactgacttttagatatctctaataactaaatgcagCCCTCATTCTGGTGAATTTAGTGGAGAAAATATTAGACTGGGATCTCGTGGTGACAGTTACTATGAGTACTTAATCAAAGTATGGCTTCAGAGTGGAGCT
upper sequence: Vv10s0003g03280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G10130.1 (Glycine max), 3'ss of exon 2
------tttctcttggaaatgttcttttgtagattaatgtaatttatgatatatctggggatagtaggggtattagtgttttgatatcatctttctattaatgcagCCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGGTGACAGCTACTATGAGTACTTAATTAAAGTGTGGCTTCAGCAGGGAGCT
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accccaattgttttttttttatcacctt-taggcttgtgtctttttttcttt-tctcatcattttc----tactgacatttagatatctctaataactaaatgcagCCCTCATTCTGGTGAGTTTAGTGGAGAAAATATTAGACTGGGATCTCGTGGGGACAGTTACTATGAGTACTTAATCAAAGTATGGCTTCAGAGTGGAGCA
upper sequence: Vv10s0003g03280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G30000.1 (Arabidopsis thaliana), 3'ss of exon 2
tttctcttggaaatgttcttttgtagattaatgtaat--ttatgatata---tctggggatagtaggggtattagtgttttgatatcatctttctat-taatgcagCCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGGTGACAGCTACTATGAGTACTTAATTAAAGTGTGGCTTCAGCAGGGAGCT
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-gtaattcgtgtttgctctttcaactataaataccatgctagtaatttgctttcccttgctttcccgggctcttttgatctgacttgttgtttctacctggtgcagCCCTCAAACAGGTGACTTTGTTGGTGAGAATATCAGGTTGGGATCTCGTGGTGATAGCTACTATGAGTATTTAATTAAGGTGTGGCTTCAGCAAGGAGCTMapped 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|30134610|gb|CB919948.1|CB919948EST: CATTTAAAGACTCTTCCAAAGGTGGAGGGACTGGTTCCAATCTATATAAG CCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGG
genomic: CATTTAAAGACTCTTCCAAAGGTGGAGGGACTGGTTCCAATCTATATAAGgtattggcat ... attaatgcagCCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGG
EST:
gi|110359036|gb|EC919849.1|EC919849EST: CATTTAAAGACTCTTCCAAAGGTGGAGGGACTGGTTCCAATCTATATAAG CCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGG
genomic: CATTTAAAGACTCTTCCAAAGGTGGAGGGACTGGTTCCAATCTATATAAGgtattggcat ... attaatgcagCCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatctggggatagtaggggtattagtgttttgatatcatctttctattaatgcagCCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGGTGACAGCTACTATGAGTACTTAATTAAAGTGTGGCTTCAGCAGGGAGCT
tattaat putative branch site (score: 2)
tctttctatt CT-rich tract
atctttctattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttctcttggaaatgttcttttgtagattaatgtaatttatgatatatctggggatagtaggggtattagtgttttgatatcatctttctattaatgcagCCCTCACTCTGGTGAATTTAATGGAGAAAATATCCGTTTGGGATCACGTGGTGACAGCTACTATGAGTACTTAATTAAAGTGTGGCTTCAGCAGGGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- -ctcttgg