Sequence
atgc intronic sequence ATGC exonic sequence...attaaggctatacaaagttttctgtgcatttttatttctccacagtatctatttgttccctctttgtgggaggtagtgatttttgtgagaaatgaaacagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCCCCACCTGGCCGACGTATGGGTCATGCTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0042g00950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os07g38970.1 (Oryza sativa), 3'ss of exon 5
attaaggctatacaa--agttttctgtgcatttttatttctccacagtatctatttgttccctctttgtgggaggtagtgatttttgtgagaaatgaaa-cagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCCCCACCTGGCCGACGTATGGGTCATGCTGGAG
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-gtccagttgcatgattgctgaaacttacatttttatgtgttt-taatattagatgagcaataacatatca-acttactgaagttgacatgcaattatttcagGAGAGCAAAACACAAAAGCCTGTTGTTGCATTCATAGCTGGACTCACTGCTCCACCTGGGCGTCGCATGGGTCATGCTGGAG
upper sequence: Vv10s0042g00950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G039251_T01 (Zea mays), 3'ss of exon 5
------attaaggctatacaaagttttctgtgcatttttatttctccacag-tatctatttgttccctctttgtgggaggtagtgatttttgtgagaaatgaaacagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCCCCACCTGGCCGACGTATGGGTCATGCTGGAG
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ttttttattagtgctgaataaaaagtt----acatttttataaataaataaataaaaacttacatttcctacctactaatt--tcatctgt-tctgaaatacctcagGAAAGCAAAACACAAAAGCCTGTTGTTGCATTCATTGCTGGACTTACAGCACCCCCGGGCCGTCGCATGGGTCATGCTGGAG
upper sequence: Vv10s0042g00950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G072054_T01 (Zea mays), 3'ss of exon 5
---attaaggctatacaaagttttctgtgcatttttatttctccacagtatctatttgttccctctttgtgggaggtagtgattt----ttgtgagaaatgaaacagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCCCCACCTGGCCGACGTATGGGTCATGCTGGAG
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tttattagtgctgaataaaaagtt----acatttttataaaaaataaata---agttacacatcctatctggtatctactaatttcatctgttttgaaatacctcagGAAAGCAAAACACAAAAGCCTGTTGTTGCATTCATTGCTGGACTTACGGCACCCCCAGGCCGTCGCATGGGTCATGCTGGAG
upper sequence: Vv10s0042g00950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G08300.1 (Arabidopsis thaliana), 3'ss of exon 5
--attaaggctatacaaagttttctgtgcatttttatttctccacagtatctatttgttccctctttgtgggaggtagtgatttttgtgagaaatgaaacagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCCCCACCTGGCCGACGTATGGGTCATGCTGGAG
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gtaataataccactgagaatctctttcatcttggtccatctctctctattctcattcttaaaagtaaaattcaaattttgggttttggtgaatat-aaacagGCAAGTGGTACTGAGAAGCCTGTTGTTGCTTTTATTGCTGGACTTACTGCACCACCGGGTCGTCGAATGGGTCATGCCGGAG
upper sequence: Vv10s0042g00950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G23250.1 (Arabidopsis thaliana), 3'ss of exon 5
attaaggctatacaaagttttctgtgcatttttatttctccacagtatctatttgttccctctttgtgggaggtagtgatttttgtgagaaatgaaacagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCCCCACCTGGCCGACGTATGGGTCATGCTGGAG
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-----gtaactgcaatgcttctt------tctaaagaatcaagagttaccattt-ttagatgatcaagcgtaaaaacatatcctgttttcaattaaacagGAAAATGGTACAGACAAGCCTGTAGTTGCTTTCATAGCCGGACTTACTGCACCACCAGGGCGTCGTATGGGTCATGCGGGAG
upper sequence: Vv10s0042g00950.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G23250.2 (Arabidopsis thaliana), 3'ss of exon 5
attaaggctatacaaagttttctgtgcatttttatttctccacagtatctatttgttccctctttgtgggaggtagtgatttttgtgagaaatgaaacagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCCCCACCTGGCCGACGTATGGGTCATGCTGGAG------------------
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-----gtaactgcaatgcttctt------tctaaagaatcaagagttaccattt-ttagatgatcaagcgtaaaaacatatcctgttttcaattaaacagGAAAATGGTACAGACAAGCCTGTAGTTGCTTTCATAGCCGGACTTACTGCACCACCAGGGCGTCGTATGGGTCATGCGGGAGGTAAATAAACTTTACTCAMapped 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|110379741|gb|EC944960.1|EC944960EST: TAGGTGAGATAGGTGGCACTGCAGAGGAGGATGCTGCCGCTCTAATAAAG GAAAGTGGGACCGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCC
genomic: TAGGTGAGATAGGTGGCACTGCAGAGGAGGATGCTGCTGCTCTAATAAAGgtgactagtg ... aatgaaacagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCC
EST:
gi|110362592|gb|EC926136.1|EC926136EST: TAGGTGAGATAGGTGGCACTGCAGAGGAGGATGCTGCCGCTCTAATAAAG GAAAGTGGGACCGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCC
genomic: TAGGTGAGATAGGTGGCACTGCAGAGGAGGATGCTGCTGCTCTAATAAAGgtgactagtg ... aatgaaacagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatctatttgttccctctttgtgggaggtagtgatttttgtgagaaatgaaacagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCCCCACCTGGCCGACGTATGGGTCATGCTGGAG
tgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attaaggctatacaaagttttctgtgcatttttatttctccacagtatctatttgttccctctttgtgggaggtagtgatttttgtgagaaatgaaacagGAAAGTGGGACTGAAAAGCCTGTTGTTGCTTTTATTGCTGGACTGACTGCCCCACCTGGCCGACGTATGGGTCATGCTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - -atacaaa
- - - - - - - - - - - -gtgcatt
- - - - - - - - - - - - - - - - - - -ctccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtagtg