Sequence
atgc intronic sequence ATGC exonic sequenceACATGGGGTTCTGTTAGAGCTGCAATGGGGCATCCAGAACGGTTCCCACTGAAGTATGTTGCTATTGGAAATGAAGATTGTGACAAGGGATTTTACCGAGgtatatttttattaaccagagcttgtcatgctaatgatcccatttgttgtcaatgccatagttgttctcattagttttcaatagacacatctataggcta...
Basic information
species | Oryza sativa |
transcript | LOC_Os11g03780.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g03780.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA19G30470.1 (Glycine max), 5'ss of exon 10
ACATGGGGTTCTGTTAGAGCTGCAATGGGGCATCCAGAACGGTTCCCACTGAAGTATGTTGCTATTGGAAATGAAGATTGTGACAAGGGATTTTACCGAGgtatatttttattaaccagagcttgtcatgctaatgatcccatttgttgtcaatgccatagttgttctcattagttttcaatagacacatctataggcta
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------------CTTAGAGCATCTATGGGGCACCCAAAGCCTTTTGACCTAAAAAATGTTGCTATTGGAAATGAAGATTGTGGAAAGACAAACTACCAAGGCATGCTCTC-----TCgttttcttttatccttttttaagtatttacactgagtgacttttttgaag---------------------------------
upper sequence: LOC_Os11g03780.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA03G00630.1 (Glycine max), 5'ss of exon 10
ACATGGGGTTCTGTTAGAGCTGCAATGGGGCATCCAGAACGGTTCCCACTGAAGTATGTTGCTATTGGAAATGAAGATTGTGACAAGGGATTTTACCGAGgtatatttttattaaccagagcttgtcatgctaatg-atcccatttgttgtcaatgccatagttgttctcattagtt--ttcaatagacacatctataggcta-
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AGATGGGGATCTCTTAGGGCTTCCATGGGACATCCCAAGCCATTTGACTTGAGAATTGTTGCAATTGGAAATGAAGATTGTGACAAGTTTAACTACAAAGgtacgattttccttgtt----tttgacatatttttttatagcatattgagttaattagttatcatatttcatttattgatatattaatttcgtttttccaggaa
upper sequence: LOC_Os11g03780.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA19G30460.1 (Glycine max), 5'ss of exon 10
ACATGGGGTTCTGTTAGAGCTGCAATGGGGCATCCAGAACGGTTCCCACTGAAGTATGTTGCTATTGGAAATGAAGATTGT-GACAAGGG-ATTTTA----CCGAGgtatatttttattaaccagagcttgtcatgctaatgatcccatttgttgtcaatgccatagttgttctcattagttttcaatagacacatctat--aggcta--
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------GGTTCTGTTAGAGCTGCAATGGGACATCCTACCCCATTTGACTTGAGATATGTTGCTGTTGGAAATGAAAATTGTTGGCAAACTTATTTTAATTATCAAGgtatgcattt--tcattgtttcttattattctt-tgagcacacataa-gtaaaccattaattaaacttccttttttgtgaataaaaaaggttaatgaaacttct
upper sequence: LOC_Os11g03780.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA03G27490.1 (Glycine max), 5'ss of exon 10
---------------------ACATGGGGTTCTGTTAGAGCTGCAATGGGGCATCCAGAACGGTTCCCACTGAAGTATGTTGCTATTGGAAATGAAGATTGTGACAAGGGATTTTACCGAGgtatatttttattaaccagagcttgtcatgctaatgatcccatttgttgtcaatgccatagttgttctcattagttttcaatagacacatctataggcta
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GCCAGAGGTGAGGCTACTTCAAAATGGGGTTCCCTTAGAGCATCTATGGGGCACCCAAAGCCTTTTGACCTAAAATATGTTGCTATTGGAAATGAAGATTgtgggaagacaaactaccaaggcatgctctcctttttct---ttttccttttttaagtatttacattgagtgacttttttgagtgaacacaa-agtatttacta-----------------
upper sequence: LOC_Os11g03780.1 (Oryza sativa), 5'ss of exon 11
lower sequence: AT5G26120.1 (Arabidopsis thaliana), 5'ss of exon 11
ACATGGGGTTCTGTTAGAGCTGCAATGGGGCATCCAGAACGGTTCCCACTGAAGTATGTTGCTATTGGAAATGAAGATTGTGACAAGGGATTTTACCGAGgtatatttttattaaccagagcttgtcatgctaatgatcccatttgttgtcaatgccatagttgttctcat-tagttttcaatagacacatctataggcta
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ACATGGGGATCGGTTCGAGCTGCAATGGGACATCCAGAGCCTTTTGAACTGAAATATGTTGCGGTTGGGAATGAAGATTGTTTTAAGAGTTACTACAGAGgttt--ttgcatttctctctgttattta---aaaccattttgaaagatacaaacaagagagctttggttatactaacttaaatacacaactttttacag--
upper sequence: LOC_Os11g03780.1 (Oryza sativa), 5'ss of exon 11
lower sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 11
ACATGGGGTTCTGTTAGAGCTGCAATGGGGCATCCAGAACGGTTCCCACTGAAGTATGTTGCTATTGGAAATGAAGATTGTGACAAGGGATTTTACCGAGgtat---atttttat-taaccagagcttgtcatgctaatgatcccatttgttgtcaatgcca-tagttgttctcattagttttcaatagacacatctataggcta
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ACTTGGGGATCTGTTCGAGCTAAAATGGGACGCCAAGAACCTTTTGAACTTAAATACGTTGCTATTGGAAATGAAGATTGTGGGAAAACTTACTACAGAGgttttgcatttctctatgatcacatcttg----acttagatttttgttgagcatctttgacactaaatgagattacaactttacag-------------------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|27548162|gb|CA766165.2|CA766165EST: GAAGTATGTTGCTATTGGAAATGAAGATTGTGACAAGGGATTTTACCGAG GAAATTACCTCAAGTTTTATGATGCTATACGCAAGGCCTATCCGGATATTC
genomic: GAAGTATGTTGCTATTGGAAATGAAGATTGTGACAAGGGATTTTACCGAGgtatattttt ... tattgtacagGAAATTACCTCAAGTTTTATGATGCTATACGCAAGGCCTATCCGGATATTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACATGGGGTTCTGTTAGAGCTGCAATGGGGCATCCAGAACGGTTCCCACTGAAGTATGTTGCTATTGGAAATGAAGATTGTGACAAGGGATTTTACCGAGgtatatttttattaaccagagcttgtcatgctaatgatcccatttgttgtcaatgccatagttgttctcattagttttcaatagacacatctataggcta
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