Sequence
atgc intronic sequence ATGC exonic sequenceAAGGAAAGGGATACACTACGAAGAGAACATAGCAGAAAAAGTGATGCTGCTGCCCTTTTGAAAGAAAAAGATGAAATAATCAACCAAGTTATGGCTGAGGgtgagttgccaaaaaagacccaaaaaacccacaatcttttcttctcctttttgttttctttgtattttcttctttatagtgcatataacatttgtttgtc...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os05g48620.1 (Oryza sativa), 5'ss of exon 5
AAGGAAAGGGATACACTACGAAGAGAACATAGCAGAAAAAGTGATGCTGCTGCCCTTTTGAAAGAAAAAGATGAAATAATCAACCAAGTTATGGCTGAGGgtgagttgccaaaaaagacccaaaaaacccacaatcttttcttctcctttttgttttctttgtattttcttctttatagtgcat-ataacatttgtttgtc
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AAAGAACGGGATACATTAAGGAGAGAGCAAAATAAAAAAAGTGATGCAGCTGCTCTTTTGAAAGAAAAGGATGAAATTATCAGTCAGGTCATGGCGGAAGgtataatgaaccaacattttctttgtctcttctattatgattgcgtataaatgttaaatttgcaatacacaatgttcgttccgttgtaatgttgagacag-
upper sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G168654_T01 (Zea mays), 5'ss of exon 13
-------------AAGGAAAGGGATACACTACGAAGAGAACATAGCAGAAAAAGTGATGCTGCTGCCCTTTTGAAAGAAAAAGATGAAATAATCAACCAAGTTATGGCTGAGGgtgagttgccaaaaaagacccaaaaaacccacaatcttttcttctccttttt-gttttctttgtattttcttctttatagtgcatataacatttgtttgtc
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ATATGCACTAACCAAAGAGCGTGATACACTAAGGAGAGAACAGAATAAAAAAAGTGATGCAGCTGCCCTTTTGAAAGAAAAGGATGAGATCATCAATCAGgtcatggctgaaggtatgt-----agaaccttacatattatgcttggtctactatttttattgtaagccaatgttagattctcattattcaaagatctgtcccta---------
upper sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA13G43330.1 (Glycine max), 5'ss of exon 8
AAGGAAAGGGATACACTACGAAGAGAACATAGCAGAAAAAGTGATGCTGCTGCCCTTTTGAAAGAAAAAGATGAAATAATCAACCAAGTTATGGCTGAGGgtgagttgccaaaaaagacccaaaaaacccacaatcttttcttctcctttttgttttct-ttgtattttcttctttat-agtgcatata-acatttgtttgtc---
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AAGGAAAGGGATACACTCCGCCGAGAGCAGAATAAAAAAAGTGATGCAGCTGCTCTCTTGAAAGAAAAGGATGAAATAATTAATCAAGTTATGGCAGAAGgtag--tgcattctgaaatc----aaacctaaatttgtatcatccaggctttgatggatacagaatcattttttttattaatgtctctttgggtttgattatatgg
upper sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA15G01980.2 (Glycine max), 5'ss of exon 6
AAGGAAAGGGATACACTACGAAGAGAACATAGCAGAAAAAGTGATGCTGCTGCCCTTTTGAAAGAAAAAGATGAAATAATCAACCAAGTTATGGCTGAGGgtgagttgccaaaaaagacccaaaaaacccacaatcttttcttctcctttttgttttct-ttgtattttcttctttatagtgcatataacatttgt-ttgtc----
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AAGGAAAGGGATACACTCCGTCGAGAGCAGAATAAAAAAAGTGATGCAGCTGCTCTCTTGAAAGAAAAGGATGAAATAATTAATCAAGTTATGGCAGAAGgtagtgtattctgaaatc------aaacctaaaattgtatcatcctggctttgatggatacagaattattttttttgttattaatgtctctttggggttgtttata
upper sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT1G79830.3 (Arabidopsis thaliana), 5'ss of exon 6
AAGGAAAGGGATACACTACGAAGAGAACATAGCAGAAAAAGTGATGCTGCTGCCCTTTTGAAAGAAAAAGATGAAATAATCAACCAAGTTATGGCTGAGGgtgagttgccaaaaaagacccaaaaaacccacaatcttttcttctcctttttgttttctttgtatttt-------cttctttatagtgca--tataacatttgtttgtc------------------------------------
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AAAGAGCGGGATACACTTAGAAGAGAACAGAACAAGAAAAGTGATGCTGCGGCCCTTTTGAAAGAAAAGGATGAAATAATAAATCAAGTTATGGCTGAAGgtaagacagccttttggaatgcttgaattatggatcgtatttttctcgttataaaaaaatggtgttgaaagcgaacacctgaaaaatgaaaggacgtcatttcttgctcagcttgagctcttgatattaatgctaatcatttcagMapped 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|34544079|gb|CF512311.1|CF512311EST: TGCCCTTTTGAAAGAAAAAGATGAAATAATCAACCAAGTTATGGCTGAGG GTGAAGAGCTTTCAAAAAAGCAAGCTGCTCAAGAGTCTCAGATTAGGAAAT
genomic: TGCCCTTTTGAAAGAAAAAGATGAAATAATCAACCAAGTTATGGCTGAGGgtgagttgcc ... cttgcttcagGTGAAGAGCTTTCAAAAAAGCAAGCTGCTCAAGAGTCTCAGATTAGGAAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGGAAAGGGATACACTACGAAGAGAACATAGCAGAAAAAGTGATGCTGCTGCCCTTTTGAAAGAAAAAGATGAAATAATCAACCAAGTTATGGCTGAGGgtgagttgccaaaaaagacccaaaaaacccacaatcttttcttctcctttttgttttctttgtattttcttctttatagtgcatataacatttgtttgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttctcc