Sequence
atgc intronic sequence ATGC exonic sequenceGAGCATGCAGATTATGACAGAATTGATCAGGAAGCTGATGAATGGAGGGCTAGGCAAATAGCCAAGGACATGGCGCAGCGCAAGgttctttctcatttttgaatttgtcattttgttagtggggttgttttgggtaagatacactgttgctccacagatgatcaattcattgatactgtgaaatcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g12670.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g12670.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G174489_T01 (Zea mays), 5'ss of exon 2
GAGCATGCAGATTATGACAGAATTGATCAGGAAGCTGATGAATGGAGGGCTAGGCAAATAGCCAAGGACATGGCGCAGCGCAAGgttctttctcatttttgaatttgtcattttgttagtggggttgttttg-ggtaagataca-ctgttgctccacagatgatcaattcattgat--actgtgaaatcag
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GAGCGTGCGGATTATGATAGAGTTGACCAGGAAGCTGATGAATGGAGGGCTAAGCAAATAGCCAAGGACATTGCAAAACAGAGGgtgcgttctcgtatctgtgaattttgtttcatgattaaagatatattgcagtaggacagaattgttgcttcagaattaatgtattcacttatgtacctgttaaccag
upper sequence: LOC_Os01g12670.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G058366_T01 (Zea mays), 5'ss of exon 3
GAGCATGCAGATTATGACAGAATTGATCAGGAAGCTGATGAATGGAGGGCTAGGCAAATAGCCAAGGACATGGCGCAGCGCAAGgttctttctcatttttgaatttgtcattttgttagtggggttgttttg-ggtaagatacact-gttgctccacagatgatcaattcattgat--actgtgaaatcag
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GAGCGTGCGGATTATGATAGAGTTGACCGGGAAGCTGATGAATGGAGGGCTAAGCAAATAGCCAAGGACATTGCAAAGCGGAGGgtgcgttctcatatctgtgaattttgtttcacgattaaagatacattgcagtaggacagatttgttgcttcagaattaatgtattcacttatgtacctgttaaccag
upper sequence: LOC_Os01g12670.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G009438_T01 (Zea mays), 5'ss of exon 2
GAGCATGCAGATTATGACAGAATTGATCAGGAAGCTGATGAATGGAGGGCTAGGCAAATAGCCAAGGACATGGCGCAGCGCAAGgttctttctcatttttgaatttgtcattttgttagtggggttgttttg-ggtaagataca-ctgttgctccacagatgatcaattcattgat--actgtgaaatcag
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GAGCGTGCGGATTATGATAGAGTTGACCAGGAAGCTGATGAATGGAGGGCTAAGCAAATAGCCAAGGACATTGCAAAGCGGAGGgtgcgttctcgtatctgtgaattttgtttcacgattaaagatacattgcagtaggacagaattgttgcttcagaattattgtattcacttatgtacctgttaaccagMapped 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|29678139|gb|CB674414.1|CB674414EST: CTGATGAATGGAGGGCTAGGCAAATAGCCAAGGACATGGCGCAGCGCAAG GTGGAAAACATGAAGCAGATTGCCAAGAAAAAAGCAAATGAGGAAAGAAAG
genomic: CTGATGAATGGAGGGCTAGGCAAATAGCCAAGGACATGGCGCAGCGCAAGgttctttctc ... gtgaaatcagGTGGAAAACATGAAGCAGATTGCCAAGAAAAAAGCAAATGAGGAAAGAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGCATGCAGATTATGACAGAATTGATCAGGAAGCTGATGAATGGAGGGCTAGGCAAATAGCCAAGGACATGGCGCAGCGCAAGgttctttctcatttttgaatttgtcattttgttagtggggttgttttgggtaagatacactgttgctccacagatgatcaattcattgatactgtgaaatcag
- - - - - - - - - - - - - - - - - - - - - TGGAGG