Sequence
atgc intronic sequence ATGC exonic sequenceGATATGAAAACAAGGGAGAAGGAACTTCTTGCAAAGGAAGCCGAGCTAAACAGGCGAGAGAAGgtaacctgaacatgatgcagaacagtgttagctgcatgtacttccttgaatttcaattctttccaactatgttggcaaagttgttgtgccaagatggatttgattatgtgtaacatgctgattgtcgcttacgtctgtatag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g38590.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g38590.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G124918_T01 (Zea mays), 5'ss of exon 4
GATATGAAAACAAGGGAGAAGGAACTTCTTGCAAAGGAAGCCGAGCTAAACAGGCGAGAGAAGgtaacctgaacatgatgcagaacagtgttagctgcatgtacttccttgaatttcaattctttccaactatgttggcaaagttgttgtgccaagatggatttgattatgtgtaacatgctgattgtcgcttacgtctgtatag
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GACAGGAAGACAAGGGAGAAGGAGCTTCTGGCCAAGGAGGCCGAGTTGAACAGGCGTGAGAAGgtaactg------gatccaacacagagaccacggcgcaaa--------aattttagtagaaagtagaaactatagcgtaccttgtgtatggcctccagtttgttgatttctctgttaaacctagcctctgctgcgtatgtag
upper sequence: LOC_Os03g38590.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G011078_T02 (Zea mays), 5'ss of exon 4
GATATGAAAACAAGGGAGAAGGAACTTCTTGCAAAGGAAGCCGAGCTAAACAGGCGAGAGAAGgtaac---ctgaacatgatgcagaacag--tgttagctgcatgtacttccttgaatttc-----aattctttcca---------actatgttggcaaagttgttgtgccaagatggatttg-attatgtgtaacatgctgatt--gtcgcttacgtctgtatag-------------------
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GACATGAAGACAAGGGAGAAGGAGCTTCTGGCCAAGGAGGCCGAGCTGAACAGGCGTGAGAAGgtagtaaactgcatccaatccaatacaagacactagcaccctgttcttgacgggtttttgtggaaattgtctttggtctaacatactatggcgcaaaacttctagta--gaaattgctgcgtaccttgtatattgcaccagttttgttggttcctccgctaaacctgtctctgctccatgtagMapped 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|25799630|gb|CA755591.1|CA755591EST: GGGAGAAGGAACTTCTTGCAAAGGAAGCCGAGCTAAACAGGCGAGAGAAG GAAATCAAAAGGAGAGAGGAGGCTGCAGCACGAG
genomic: GGGAGAAGGAACTTCTTGCAAAGGAAGCCGAGCTAAACAGGCGAGAGAAGgtaacctgaa ... gtctgtatagGAAATCAAAAGGAGAGAGGAGGCTGCAGCACGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATATGAAAACAAGGGAGAAGGAACTTCTTGCAAAGGAAGCCGAGCTAAACAGGCGAGAGAAGgtaacctgaacatgatgcagaacagtgttagctgcatgtacttccttgaatttcaattctttccaactatgttggcaaagttgttgtgccaagatggatttgattatgtgtaacatgctgattgtcgcttacgtctgtatag
- - - - - - - GGAGAA
- - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - AAGGAA