Sequence
atgc intronic sequence ATGC exonic sequence...tgtgattgttgacctgaagaactagagaaactattactgtgaaggggatttcttttgaacttgttccgacttctgagagcctgtttttctgtatttttagGCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACACGGATGTTTTATGAGATTGTGGTTGCACCCAAGTATTCACAAAAGGGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g01460.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os08g10570.1 (Oryza sativa), 3'ss of exon 9
tgtgattgttgacctgaagaactagagaaactattactgtgaaggggatttcttttgaacttgttccgacttctgagagcctgtttttctgtatttttagGCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACACGGATGTTTTATGAGATTGTGGTTGCACCCAAGTATTCACAAAAGGGAC
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-----------------gtatccagtagacttcttgcctctaaac--acttgtgttg--ttgggcatgaccattattcacactatatcatgt---ttcagGATCTTGCAAAAGAAATCCGTGAATTCAGGAGCCCTACAGATGGACAGACGCGAATGTTCTACGAGATTGTTGTTGCACCCGGCTATACAGAAAAGGGTC
upper sequence: Vv01s0011g01460.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G16670.1 (Glycine max), 3'ss of exon 9
tgtgattgttgacctgaagaactagagaaactattactgtgaaggggatttcttttgaacttgttccgacttctg---agagcctgtttttctgtatttttagGCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACACGGATGTTTTATGAGATTGTGGTTGCACCCAAGTATTCACAAAAGGGAC
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ttttat-gtagatacaggcactttccctacttac--cttttaagatcccatcttggcaatgaggaggaacagtgatataaaattaatgctttttaatatttagGCACTTGCTAAAGAAATTCGAGAATTTAGAAGCCCCACAGATGGGGAGACAAGGATGTTTTATGAAATAGTGGTTGCGCCCAGCTATACAGAGAAGGGAC
upper sequence: Vv01s0011g01460.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G25900.1 (Glycine max), 3'ss of exon 9
tgtgattgttgacctgaagaactagagaaactattactgtgaaggggatttcttttgaacttgttccgacttctg----agagcctgtttttctgtatttttagGCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACACGGATGTTTTATGAGATTGTGGTTGCACCCAAGTATTCACAAAAGGGAC
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ttttat-gtagata-ggggcactttccctact--tactttataagatcccatcttggcagtgaggaggaagagtgatataaaattaatgctttttaatatttagGCACTTGCTAAAGAAATTCGAGAATTTAGAAGCCCCACAGATGGGGAGACAAGGATGTTTTATGAAATAGTGGTTGCGCCCAGCTATACAGAGAAGGGAC
upper sequence: Vv01s0011g01460.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S160_136V6.1 (Physcomitrella patens), 3'ss of exon 8
-------tgtgattgttgacctgaagaactagagaaactattact---gtgaaggggatttcttttgaacttgtt---ccgacttctgagagcctgtttttctgtattttt--agGCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACACGGATGTTTTATGAGATTGTGGTTGCACCCAAGTATTCACAAAAGGGAC
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gtaaactcttaattggctctttgtacacttttgtcagttctcattttcgtgatttgatctgattttgtatttattattcttctttgtaatgacctggtgacgtgtgtttttgtagACCCTTGCACGCGAGATTCGGGAGTTTCGTAGTCCCACAGATTGTGAAACCCGGATGTTTTATGAAATTGTGGTGGCTCCCAGTTACACAGAGAAAGGTCMapped 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|26267032|gb|CA818095.1|CA818095EST: CAGTGCGTGCATTTGGTGGTATCGTAGCCTTCAACATAGAAGTTGATGAG GCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACA
genomic: CAGTGAGTGCATTTGGTGGTATCGTAGCCTTCAACATAGAAGTTGATGAGgtgagccatt ... gtatttttagGCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACA
EST:
gi|33403298|gb|CF208925.1|CF208925EST: CAGTGAGTGCATTTGGTGGTATCGTAGCCTTCAACATAGAAGTTGATGAG GCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACA
genomic: CAGTGAGTGCATTTGGTGGTATCGTAGCCTTCAACATAGAAGTTGATGAGgtgagccatt ... gtatttttagGCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggatttcttttgaacttgttccgacttctgagagcctgtttttctgtatttttagGCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACACGGATGTTTTATGAGATTGTGGTTGCACCCAAGTATTCACAAAAGGGAC
tttttctgtattttt CT-rich tract
tttttctgtattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgattgttgacctgaagaactagagaaactattactgtgaaggggatttcttttgaacttgttccgacttctgagagcctgtttttctgtatttttagGCACTTGCAAAAGAAATCCGTGAGTTTAGGAGTCCAACTGATGGTGAAACACGGATGTTTTATGAGATTGTGGTTGCACCCAAGTATTCACAAAAGGGAC
- - - tgttgac
- - - - - - - -gaagaac
- - - - - - - - - - - - gagaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttctga