Sequence
atgc intronic sequence ATGC exonic sequenceAGAAGTGGGTGCCACACGCGCTGGTGGTTTCAAGTCCATGTATTCTGATAGAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcctgaatattcactgaaatatgacactgttcgtatctttaatggaagaattgcaaatctggagaagctccaattcgacttcttgtttttcccttgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G086934_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os03g11540.1 (Oryza sativa), 5'ss of exon 9
AGAAGTGGGTGCCACACGCGCTGGTGGTTTCAAGTCCATGTATTCTGATAGAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcctg-aatattcactgaaatatgacactgttcgt-atctttaatgga--agaattgcaaatctggagaagctccaattcgacttcttgtttttcccttgcag
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AGATATGGGCGCATCAAGGGTTGGTGGCGCGAGATCCATGTACAGTGATAGAGTTTTTCTGTCTCACATCACAAGTGACCCCAACTTGGGTCAGGATAAGgtaaaatcttggaatctttgaaagaaaatggaattgttcttgatgtttagtttattagcactttctagttgtgattgtcctaaatttacttgttatgttt----tgcag
upper sequence: GRMZM2G086934_T01 (Zea mays), 5'ss of exon 9
lower sequence: AT5G08020.1 (Arabidopsis thaliana), 5'ss of exon 7
AGAAGTGGGTGCCACACGCGCTGGTGGTTTCAAGTCCATGTATTCTGATAGAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcctgaatattcactgaaatatgacactgttcgtatctttaatggaagaattgcaaatctggagaagctccaattcgacttcttgtttttcccttgcag
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TGGGATGAGTTCTTCTGCCAACAACGGATCAAGATCCATGTATTCTGACAGAGTTTTTCTTTCTCACATCACAAGCAATCCCTCTTTAGGCGAGGAGAAGgtac--ttcaaaacactt-ttaacatattaagatatg-gaaaaaagaaaagttgatttatgagtctcgtata--tatattgcag---------------------Mapped 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|67028077|gb|CO456826.1|CO456826EST: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAG CCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAG
genomic: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcct ... tcccttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAG
EST:
gi|74239181|gb|DT647095.1|DT647095EST: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAG CCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAG
genomic: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcct ... tcccttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAG
EST:
gi|67023291|gb|CO452040.1|CO452040EST: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAG CCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAG
genomic: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcct ... tcccttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAG
EST:
gi|60342386|gb|DN209359.1|DN209359EST: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAG CCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAG
genomic: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcct ... tcccttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAG
EST:
gi|211282783|gb|FL192974.1|FL192974EST: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAG CCTGTTTTCTTCAGTCTGTATGCCATNATAANCCACATCAAGCCTGATCAG
genomic: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcct ... tcccttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAG
EST:
gi|32914104|gb|CF018916.1|CF018916EST: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAG CCTGTTTTCTTCAGTCTGTATGCCATCATAAGCCACATCAAGCCTGATCAG
genomic: GAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcct ... tcccttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAG
RNA-Seq data
ATGC Supported by RNA-Seq exonic block that spans over the splice site
atgs Truncated intron sequence
Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.
Found data for 4 RNA-Seq libraries.
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
232AGAAGTGGGTGCCACACGCGCTGGTGGTTTCAAGTCCATGTATTCTGATAGAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcct ... tcccttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAGAATATGTGGTACCGTGCTTGCACGACCTGTAACAAGAAGGTGACTGAAG
Block sizes:
44 (upstream exon),
47 (downstream exon)
Score:
46AGAAGTGGGTGCCACACGCGCTGGTGGTTTCAAGTCCATGTATTCTGATAGAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcct ... tcccttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAGAATATGTGGTACCGTGCTTGCACGACCTGTAACAAGAAGGTGACTGAAG
Block sizes:
45 (upstream exon),
48 (downstream exon)
Score:
27AGAAGTGGGTGCCACACGCGCTGGTGGTTTCAAGTCCATGTATTCTGATAGAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcct ... tcccttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAGAATATGTGGTACCGTGCTTGCACGACCTGTAACAAGAAGGTGACTGAAG
Block sizes:
45 (upstream exon),
47 (downstream exon)
Score:
19AGAAGTGGGTGCCACACGCGCTGGTGGTTTCAAGTCCATGTATTCTGATAGAGTTTTTCTGTCTCACATCACCAGTGATCCTGCTATGGGCCAGGAAAAGgtacgatcct ... tcccttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAGAATATGTGGTACCGTGCTTGCACGACCTGTAACAAGAAGGTGACTGAAG