Sequence
atgc intronic sequence ATGC exonic sequence...ttgctgatacatccaacattaagtagattttatttatacaaaaattttcttccttgcatgttctcgtctttatttattttgttcttgttatggatttcagCTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTACAGTACTGGAGAGAGAGTGCATCTGGCATTAGCAGTCTGGCTTATTTTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os06g51460.1 (Oryza sativa), 3'ss of exon 11
--------------------------------ttgctgatacatccaacatt---aagtagattttatttatacaaaa----attttcttccttgcatgttctcgtctttatttattttgttcttgttatg--gatttcagCTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTACAGTACTGGAGAGAGAGTGCATCTGGCATTAGCAGTCTGGCTTATTTTCT
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gtaagtttctcagcccatcctggaaaggagtcttttttatccatgaattattttcagagaaataatgtttatataatacgtaatgagaaaataagtaagtagtaaaaataaggtaataagcgtgggatatattaattgcagCTCTGCTGTGCAAGATTGGAGCGCTGAGATCATTCTCTCTGGAGAAGATACACTACTGGAGGGAGAGAGCATCTGGAATGAGCTCGTTGGCGTACTTCAT
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA20G32210.1 (Glycine max), 3'ss of exon 12
ttgctgatacatccaacattaagtagattttatttatacaaaaattttcttccttgcatgttctcgtctttatttattttgttcttgttatggatttcagCTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTACAGTACTGGAGAGAGAGTGCATCTGGCATTAGCAGTCTGGCTTATTTTCT
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---gtaagtcatataaatataaatatcattaaacaatgtatctactacctagcattcatgtgagcaatgctttattcttatctattattgttaatttcagCTCTTCTGTGCAAAATAGCGGCCTTGAGATCATTTTCTCTGGATAAATTACACTACTGGAGGGAGAGTGATTCTGGCATGAGCAGCTTGGCTTATTTCCT
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G35310.1 (Glycine max), 3'ss of exon 13
ttgctgatacatccaacattaagtagattttatttatacaaaaattttcttccttgcatgttctcgtctttatttattttgttcttgttatggatttcagCTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTACAGTACTGGAGAGAGAGTGCATCTGGCATTAGCAGTCTGGCTTATTTTCT
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------gtaagtc--acat-aaatatcactaaataatgtaccaactacctagcattcatgtgagcaatgctttattcttatctattgttgttaatttcagCTCTTCTGTGCAAAATAGCGGCCTTGAGATCATTTTCTCTGGATAAATTACACTATTGGAGGGAGAGTGATTCTGGCATGAGCAGCTTGGCTTATTTCCT
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA02G21570.1 (Glycine max), 3'ss of exon 10
ttgctgatacatccaacattaagtagattttatttatacaaaaattttcttccttgcatgttctcgtctttatt-tattttgttcttgttatggatttcagCTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTACAGTACTGGAGAGAGAGTGCATCTGGCATTAGCAGTCTGGCTTATTTTCT
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attttcatggagttagtatagatttaacgttattgaaa-atagactttcagattcttgtgtacaatgctttattctaatttattattattgttaatttcagCTCTTCTATGCAAAATAGCTGCCTTGAGATCTTTTTCTCTGGATAAATTACACTACTGGAGGGAGAGTGATTCTGGCATGAGCAGCTTGGCATACTTTCT
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G53390.1 (Arabidopsis thaliana), 3'ss of exon 11
--ttgctga--tacatccaacattaagtagattttatttatacaaaa-attttct-----tccttgcatgttctcgtctttatt-tattttgttcttgttatggatt--tcagCTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTACAGTACTGGAGAGAGAGTGCATCTGGCATTAGCAGTCTGGCTTATTTTCT
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gtaagttggattaaaccctttactaaactatcattactgttattaatcattttttgagagtttctttatgttcttatctatcttatgttatgatcctcttcttcttctgtcagCTCTTCTTTGCAAAATAGCAGCTTTAAGATCATTCTCACTAGACAAGTTACATTACTGGAGAGAAAGTGCTTCAGGGATGAGTAGTTCGGCCTGCTTCCTMapped 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|33406999|gb|CF212626.1|CF212626EST: CGATGAAACCTTTGGAGCACTTGGTTATACTTATACCATCATTGCAGTTT CTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTAC
genomic: CGATGAAACCTTTGGAGCACTTGGTTATACTTATACCATCATTGCAGTTTgtaagttgac ... tggatttcagCTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttccttgcatgttctcgtctttatttattttgttcttgttatggatttcagCTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTACAGTACTGGAGAGAGAGTGCATCTGGCATTAGCAGTCTGGCTTATTTTCT
tttatttattttgttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgctgatacatccaacattaagtagattttatttatacaaaaattttcttccttgcatgttctcgtctttatttattttgttcttgttatggatttcagCTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTACAGTACTGGAGAGAGAGTGCATCTGGCATTAGCAGTCTGGCTTATTTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
-tgctgat
- - - - acatcca
- - - - - - - - - - - - - - - - - - -acaaaaa