Sequence
atgc intronic sequence ATGC exonic sequenceCTGGCATCTCACTCTCCCCATCATCCTCTGGGAGGACTGCAACTGGATTGTGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAAgtctctttctttctctcccctgtggactctctgctattcactcattcatactttctagcttcctctaatctccctagagcttttgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02870.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os03g01570.2 (Oryza sativa), 5'ss of exon 3
CTGGCATCTCACTCTCCCCATCATCCTCTGGGAGGACTGCAACTGGATTGTGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAAgt----ctctttctttctctcccctgtggactct-ctgctattcac--tcattcatactt---tctagcttcctctaatctccctagagcttttgcag--
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GTGGCATCTCACGCTTCCAGTGATACTCTGGGATGAATGTAAATGGATAGTCGTTCCAGCTACTTTTATCAGTGCTGCCTCTCTATTCTGCATTGAGGAAgtaagtctcaacttatttttcaaccccaagttgtgcttccatttaaaactgttcaaaattgtgccttggtagctaccagctgcaggcagcaattggccat
upper sequence: Vv15s0046g02870.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G114469_T02 (Zea mays), 5'ss of exon 3
CTGGCATCTCACTCTCCCCATCATCCTCTGGGAGGACTGCAACTGGATTGTGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAAgtctctttctttctctcccctgtggactctctgctattcac-tcattcatactttctagcttcctctaatctccctagagcttttgcag
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GTGGCATCTTACACTCCCAATCATACTCTGGGAAGAATGTAAATGGATTGTTGTTCCAGCTACCTTTATCAGTGCTGCATCGCTATTCTGCATTGAGGAAgtaagtttcttctacttgtcattaggctctg-gaagttcacatcctaaactgacactattgcactttcag-------------------
upper sequence: Vv15s0046g02870.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA03G01280.1 (Glycine max), 5'ss of exon 4
CTGGCATCTCACTCTCCCCATCATCCTCTGGGAGGACTGCAACTGGATTGTGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAAgtctctttctttctctcccctgtggactctctgctattcactcattcatactttctagcttcctctaatctcccta-----gagcttttgcag----------
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GTGGCATTTGACACTCCCTATCATACTTTGGGATGATTGCCATTGGATTGTGGTTCCTGCTACCTTTATTAGTGCTGCCTCTTTGTTTTGCATTGAAGAAgtatgatcctctcctttacct-tgactcctggactatttaatgtatcaaaataagttgtt--ctgtaatttattgatggatggattcttggaaggaaaaatat
upper sequence: Vv15s0046g02870.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA07G07830.1 (Glycine max), 5'ss of exon 3
CTGGCATCTCACTCTCCCCATCATCCTCTGGGAGGACTGCAACTGGATTGTGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAAgtctctttctttctctcccctgtggactctctgctattcactcattcatactttctagcttcctctaatctccc------tagagcttttgcag---------
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GTGGCATTTGACACTCCCTATCATACTTTGGGATGATTGCCATTGGATTGTGGTTCCTGCTACCTTTATTAGCGCCGCCTCTTTGTTTTGCATTGAAGAAgtatgatcctctcctttacct-taactcctggactatttaatgtatcaaaataagttgtt--ctgtaatttattgatggatggattctttgaaggaaaagtat
upper sequence: Vv15s0046g02870.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT3G61320.1 (Arabidopsis thaliana), 5'ss of exon 3
CTGGCATCTCACTCTCCCCATCATCCTCTGGGAGGACTGCAACTGGATTGTGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAAgtctctttctttctctcccctgtggactctctgctattcactc--attcatactttctagcttcctctaatctccctagagcttttgcag
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TTGGCATCTAACTCTCCCAATCATTCTCTGGGATGAATGCCATTGGATTGTTGTTCCTGCTACTTTCATTAGTGCTGCCTCTCTGTTCTGCATAGAAGAAgtactttgtcctcctcctcctccatacttaccctcttttgcttgaatccttaaccattaaac-cttctttttggattggaaactctgcag
upper sequence: Vv15s0046g02870.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT2G45870.1 (Arabidopsis thaliana), 5'ss of exon 3
CTGGCATCTCACTCTCCCCATCATCCTCTGGGAGGACTGCAACTGGATTGTGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAAgtctctttctttctctcccctgtggactctctgctattcactcattcatacttt-ctagcttcctctaatc---tccctagagcttttgcag
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ATGGCATCTAACACTCCCTGTTATTCTCTGGGATGATTGCCACTGGAATGTAGTCCCTGCTACTTTCATCAGTGCTGCCTCTCTCTTCTGCATTGAAGAAgtacctaactttttctcgttcatagattagtcac-attttttttttcttgcctcattatcactctttaagttggtgcttgaaatgtctgcagMapped 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|22012199|gb|BQ797233.1|BQ797233EST: TGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAA GTGGGTGTTCTCATTGAAGAACCATTTCCAATGCTTGCACTGGACGAGCTC
genomic: TGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAAgtctctttct ... gcttttgcagGTGGGTGTTCTCATTGAAGAACCATTTCCAATGCTTGCACTGGACGAGCTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGGCATCTCACTCTCCCCATCATCCTCTGGGAGGACTGCAACTGGATTGTGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAAgtctctttctttctctcccctgtggactctctgctattcactcattcatactttctagcttcctctaatctccctagagcttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA