Sequence
atgc intronic sequence ATGC exonic sequence...caaaaaagtgcaaaagaatgaaagcttcttattttgagtttcaaaaggggaagaccttccaatttttttcacttgttatctttcttatgcattcttgtagAACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTGCGTTGGGATCTGCAAGAGGGCTTTCTTATTTGCATGATCATTGTGACCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os08g07760.1 (Oryza sativa), 3'ss of exon 9
caaaaaagtgcaaaagaatgaaagcttcttattttgagtttcaaaaggggaagaccttccaatttttttcacttgttatctttcttatgcattcttgtagAACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTGCGTTGGGATCTGCAAGAGGGCTTTCTTATTTGCATGATCATTGTGACCC
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---------------gtacgttgccttttttttttccaatctgacatccctgtatctttcagataattggagggttgatttgggttttatatt---atagAACGGCCACCATCGGAACCTCCACTTGATTGGCGAACAAGAAGAAGGATTGCGTTGGGTTCCGCCAGGGGGCTGTCCTATTTACATGATCATTGTGACCC
upper sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G150024_T01 (Zea mays), 3'ss of exon 9
-------------caaaaaagtgcaaaagaatgaaagcttcttattttgagtttcaaaaggggaagaccttccaatttttttcacttgttatctttcttatgcattcttgtagAACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTGCGTTGGGATCTGCAAGAGGGCTTTCTTATTTGCATGATCATTGTGACCC
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gttctttattctttattataatttataaaaaacctgattccatagtcccaact--aaacaagcagaacgtt--agcttcctgttctcattaaactttctg---attcc-atagAGCGCCAGGCATCTGAACCACCTCTTAAATGGGAAACAAGAAGACGGATTGCACTGGGATCTGCAAGAGGTCTTTCTTACTTGCATGATCACTGCGATCC
upper sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G115420_T01 (Zea mays), 3'ss of exon 9
caaaaaagtgcaaaagaatgaaagcttcttattttgagtttcaaaaggggaagaccttccaatttttttcacttgttatctttcttatgcattcttgtagAACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTGCGTTGGGATCTGCAAGAGGGCTTTCTTATTTGCATGATCATTGTGACCC
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gtactttgttctttattctaaaaa-tactgattccatagccccaactaaacaagcagaatattagcttcctgttctcattaatatttctgattcc-atagAGCGGCAGCCATCTGAGCCACCTCTTAGCTGGGAACCAAGAAGACGGATTGCACTGGGATCTGCAAGAGGACTTTCTTACTTGCATGATCACTGCGATCC
upper sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G08360.1 (Glycine max), 3'ss of exon 7
---------------------------------------------------------------------------caaaaaagtgcaaaagaatgaaagcttcttattttgagtttcaaaagggg---------aagaccttccaatttttttca-cttgttatctttcttatgcattcttgtagAACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTGCGTTGGGATCTGCAAGAGGGCTTTCTTATTTGCATGATCATTGTGACCC
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gtacggcctttgctttttcctcctatatggccactagactagtaggcaacaaaataggacatactgtattttttgctatgttgtgactacggactcaa-ttatttattttatttgtcaaatatgagtcttctacattatcttctacttagcattgtcttgtgatcttgtatttgcattattctagAGCGTCCGGCACATCAACAACCCCTTGATTGGCCGACAAGGAAAAGAATAGCATTGGGATCAGCAAGGGGTCTTTCATATTTGCATGATCATTGTGACCC
upper sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G36280.1 (Glycine max), 3'ss of exon 9
caaaaaagtgcaaaagaatgaaag--cttcttattttgagt---ttcaaaaggggaagaccttccaatttttttcacttgttatctttcttatgcattcttgtagAACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTGCGTTGGGATCTGCAAGAGGGCTTTCTTATTTGCATGATCATTGTGACCC
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-agaaaattttacttgtattattggcccacccatactggttatattctcaatcattaaatgtt----tattattgtcttataattttgtaattgctttattttagAGCGTCCTCCATATCAAGAACCCCTGGATTGGCCAACCCGGAAAAGAGTAGCTTTGGGATCTGCAAGGGGTCTTTCATATTTGCATGATCATTGTGACCC
upper sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G31320.1 (Glycine max), 3'ss of exon 9
--caaaaaagtgcaaaagaatgaaagcttcttattttgagtttcaaaaggggaagaccttccaatttttttcacttgttatctttcttatgcattcttgtagAACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTGCGTTGGGATCTGCAAGAGGGCTTTCTTATTTGCATGATCATTGTGACCC
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ttaagtaaattttacttgtattattggcccacccatactggtt--atattctcaatcattgaatgtttttattgtcataattttgtaattggtttattttagAGCGTCCTCCACATCAAGAACCCCTGGATTGGCCAACTAGAAAAAGAATAGCTTTGGGATCAGCAAGGGGTCTTTCATATTTGCATGATCATTGTGACCCMapped 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|30302748|gb|CB979542.1|CB979542EST: GCTTGTTTATCCGTATATGGCTAATGGAAGCGTTGCATCATGTTTAAGAG AACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTG
genomic: GCTTGTTTATCCGTATATGGCTAATGGAAGCGTTGCATCATGTTTAAGAGgtaatgcctg ... attcttgtagAACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggggaagaccttccaatttttttcacttgttatctttcttatgcattcttgtagAACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTGCGTTGGGATCTGCAAGAGGGCTTTCTTATTTGCATGATCATTGTGACCC
cattctt CT-rich tract
aatttttttcactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaaaaagtgcaaaagaatgaaagcttcttattttgagtttcaaaaggggaagaccttccaatttttttcacttgttatctttcttatgcattcttgtagAACGCCCGGCATCTGAACCACCACTTGATTGGCCAACAAGGAAGCGAATTGCGTTGGGATCTGCAAGAGGGCTTTCTTATTTGCATGATCATTGTGACCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
-aaaaaag
- - - - - -aaaagaa
- - - - - - - - - - - - - - - - - - - -ttcaaaa
- - - - - - - - - - - - - - - - - - - - - - - ggggaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - ccttcca