Sequence
atgc intronic sequence ATGC exonic sequenceAAGCGAGGAGTTGGAAACTGCTTTGATGGAAATGGTCAAGCAGGACAACAGACATATGTTGAGTGCTAAGgtaagatgttatctacaactgcttctctttcccctccaggactgcacaacttaatgcaatccaagacttctttataattgaaccaattgcttgaagattacctagtagtagtgtagttatagtccttaaatctgttttgtccttcgggcttaaatttgggcacattcattcttgacttagaaaagattctcag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g17540.3 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g17540.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G154883_T02 (Zea mays), 5'ss of exon 13
AAGCGAGGAGTTGGAAACTGCTTTGATGGAAATGGTCAAGCAGGACAACAGACATATGTTGAGTGCTAAGgtaagatgttatctacaactgcttctctttcccctccaggactgcacaacttaatgcaatccaagacttctttataattgaaccaattgcttgaagattacctagtagtagtgtagttatagtccttaaatctgttttgtccttcgggcttaaatttgggcacattcattcttgacttagaaaagattctcag
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GAGTGAGGAATTGGAAACTGCTTTGATGGAGATGGTCGAGCATGACAACAGACGTATGTTGAGTGCAAAGgtatgatgctaactggaattactttttttt--------------------ttaacgtaataactggaatcgttttttttgaatcactttttctggtacctctcagcaaagttgaatgtcc-------------------------------------------------------------------------
upper sequence: LOC_Os03g17540.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G095868_T02 (Zea mays), 5'ss of exon 13
AAGCGAGGAGTTGGAAACTGCTTTGATGGAAATGGTCAAGCAGGACAACAGACATATGTTGAGTGCTAAGgtaagatgttatctacaactgcttctctttcccctccaggactgcacaacttaatgcaatccaagacttctttataattgaaccaattgcttgaagattacctagtagtagtgtagttatagtccttaaatctgttttgtccttcgggcttaaatttgggcacattcattcttgacttagaaaagattctcag
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GGGCGAGGAATTGGAAACTGCTTTGATGGAGATGGTCAAGCATGACAACAGACGTATGTTGAGTGCTAAGgtatgatgctaactggaatcactttttctggtacctctcagc-atatggtttcaagaaagttga-atctcccagtaggccagccagtactattatgtatgct-------------------------------------------------------------------------------------------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|88305777|gb|CI633347.1|CI633347EST: ATGTTGAGTGCTAAG GTTGAGAAATTGGAGGCAGAGGTATCTGAGTTGCGAAAGTCCTTTGCAGAC
genomic: ATGTTGAGTGCTAAGgtaagatgtt ... agattctcagGTTGAGAAATTGGAGGCAGAGGTATCTGAGTTGCGAAAGTCCTTTGCAGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGCGAGGAGTTGGAAACTGCTTTGATGGAAATGGTCAAGCAGGACAACAGACATATGTTGAGTGCTAAGgtaagatgttatctacaactgcttctctttcccctccaggactgcacaacttaatgcaatccaagacttctttataattgaaccaattgcttgaagattacctagtagtagtgtagttatagtccttaaatctgttttgtccttcgggcttaaatttgggcacattcattcttgacttagaaaagattctcag
- - - - - - - - - - - - GATGGA