Sequence
atgc intronic sequence ATGC exonic sequencegtattccctgacttaaatgattgtattgactgcatttttctgattttagtatgacaccttttctttaatttgattgaaacattcttcagGTGAAGTTTGATCAATTTGTTGAGCAAGGACGGGTTCTTCATAATTATGCTTCTATTTTGGAGTTGCTTTTATGTCTTCGCCAATGTTGTGATCATCCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os02g32570.1 (Oryza sativa), 3'ss of exon 13
-----gtattccctgacttaaatgattgta-ttgactgcatttttctgattttagtatgacaccttttctttaatttgattgaaacattcttcagGTGAAGTTTGATCAATTTGTTGAGCAAGGACGGGTTCTTCATAATTATGCTTCTATTTTGGAGTTGCTTTTATGTCTTCGCCAATGTTGTGATCATCCAT
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gtaatgcatcttc-aaccaaagaagttctactcgtttggatttctgagagacaaat-tgatagtcttgttctgctttgat-------------agGTGAAATTTGATCAATTCGTGGAACAAGGAAGGGTCTTGCACAATTATGCTTCAATTTTGGAGTTGCTTTTGCGCCTTCGGCAGTGTTGTGACCACCCAT
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G057504_T01 (Zea mays), 3'ss of exon 2
gtattccctgacttaaatgattgtattgactgcatttttctgattttagtatgacaccttttctttaatttgattgaaacattcttcagGTGAAGTTTGATCAATTTGTTGAGCAAGGACGGGTTCTTCATAATTATGCTTCTATTTTGGAGTTGCTTTTATGTCTTCGCCAATGTTGTGATCATCCAT
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-----------gtaatgcgcttctactgataagcgtattct---ttcagggaaacaaattaa--ttgccttgtgttgattat-----agGTAAAATTTGATCAATTTGTTGAGCAAGGAAGGGTTCTGCACAACTATGCTTCAATTTTGGAGTTACTTTTGCGCCTAAGGCAATGCTGTGATCATCCAT
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA17G05390.1 (Glycine max), 3'ss of exon 13
-----------gtattccctgacttaaatgattgta----ttgactgcatttttctgattttagtatgacaccttttctttaatttgattgaaacattc-ttcagGTGAAGTTTGATCAATTTGTTGAGCAAGGACGGGTTCTTCATAATTATGCTTCTATTTTGGAGTTGCTTTTATGTCTTCGCCAATGTTGTGATCATCCAT
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gtattctgagtttctaatctaaatttaatattttcagtttttcaccttattttttggcactgaaacaaaccacattgatccaactcgttgatgaaatttatgcagGTAAAATTTGACCAGTTTGTTGAGCAAGGGCGTGTTCTTCATAATTATGCTTCAATATTGGAGTTACTTTTACGTCTTCGGCAATGTTGTGATCATCCAT
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA12G30540.1 (Glycine max), 3'ss of exon 14
-----------gtattccctgacttaaatgattgta----ttgactgcatttttctgattttagtatgacaccttttctttaatttgattga--aacattcttcagGTGAAGTTTGATCAATTTGTTGAGCAAGGACGGGTTCTTCATAATTATGCTTCTATTTTGGAGTTGCTTTTATGTCTTCGCCAATGTTGTGATCATCCAT
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gtattctgagtttctaatctaaatttaatattttcagtttttcaccttattttt-tggcaatgaaacaagtcacattgatccaactcattgatgaaatttatgcagGTAAAATTTGACCAGTTTGTTGAGCAAGGGCGTGTTCTTCATAATTATGCTTCAATATTGGAGTTACTTTTACGTCTTCGGCAATGTTGTGATCATCCAT
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT5G22750.1 (Arabidopsis thaliana), 3'ss of exon 13
gtattccctgacttaaatgattgtattgactgcatttttctgattttagtatgacaccttttctttaatttgattg-aaacattcttcagGTGAAGTTTGATCAATTTGTTGAGCAAGGACGGGTTCTTCATAATTATGCTTCTATTTTGGAGTTGCTTTTATGTCTTCGCCAATGTTGTGATCATCCAT
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gtattgttttccttag--gattat-ttactcgaactttagttatt-----aagatgccttatactgaagatgctgacggatctttttcagGTCAAATTTGATCAATTTGTTGAACAAGGCAAAGTTCTTCATAACTATGCTTCGATCCTGGAACTGCTTTTGCGTCTTCGACAATGTTGTGATCACCCATMapped 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|30253382|gb|CB970933.1|CB970933EST: TTACTTCAGCTGAAAAAGACTTTTATGAGGCTCTATTTAAAAGATCCAAG GTGAAGTTTGATCAATTTGTTGAGCAAGGACGGGTTCTTCATAATTATGCT
genomic: TTACTTCAGCTGAAAAAGACTTTTATGAGGCTCTATTTAAAAGATCCAAGgtattccctg ... cattcttcagGTGAAGTTTGATCAATTTGTTGAGCAAGGACGGGTTCTTCATAATTATGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttctgattttagtatgacaccttttctttaatttgattgaaacattcttcagGTGAAGTTTGATCAATTTGTTGAGCAAGGACGGGTTCTTCATAATTATGCTTCTATTTTGGAGTTGCTTTTATGTCTTCGCCAATGTTGTGATCATCCAT
cattcttc CT-rich tract
ttttctttaatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattccctgacttaaatgattgtattgactgcatttttctgattttagtatgacaccttttctttaatttgattgaaacattcttcagGTGAAGTTTGATCAATTTGTTGAGCAAGGACGGGTTCTTCATAATTATGCTTCTATTTTGGAGTTGCTTTTATGTCTTCGCCAATGTTGTGATCATCCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG