Sequence
atgc intronic sequence ATGC exonic sequencegtgaggagaggaaagtttcctctggaatttcatactgcatgttatatctttgccaagttggtggtcttagtgtgatactgtgattaatttggaccgatgaagatatgtgtattgaatttttctttgcaagtttaaatcagtgtaacactatgaatgtgagcgtgtgaatgcagCTTGTAGTGAAGCTTTGTTGAGCTTACGCAAAGCAGAGAAGGGCATCGGCGCGGGGTTCCTAGAGGATGCTGCCACCTCCATCCCCTTGCGTCACGGCCG
Basic information
species | Oryza sativa |
transcript | LOC_Os01g54980.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
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|88206211|gb|CI206060.1|CI206060EST: GGCTCCTCGTCAGCTCCATCCTACCTCTTCTTCTGCCTTTTTGGAAGGAG CTTGTAGTGAAGCTTTGTTGAGCTTACGCAAAGCAGAGAAGGGCATCGGCG
genomic: GGCTCCTCGTCAGCTCCATCCTACCTCTTCTTCTGCCTTTTTGGAAGGAGgtgaggagag ... gtgaatgcagCTTGTAGTGAAGCTTTGTTGAGCTTACGCAAAGCAGAGAAGGGCATCGGCG
EST:
gi|41882147|gb|BX927771.1|BX927771EST: GGCTCCTCATCAGTTCCATCCTACCTCTTCTTCTGCCTTTTTGGAAGGAG CTTGTAGTGAAGCTTTGTTGAGCTTACGCAAAGCAGAGAAGGGCATTGGCG
genomic: GGCTCCTCGTCAGCTCCATCCTACCTCTTCTTCTGCCTTTTTGGAAGGAGgtgaggagag ... gtgaatgcagCTTGTAGTGAAGCTTTGTTGAGCTTACGCAAAGCAGAGAAGGGCATCGGCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctttgcaagtttaaatcagtgtaacactatgaatgtgagcgtgtgaatgcagCTTGTAGTGAAGCTTTGTTGAGCTTACGCAAAGCAGAGAAGGGCATCGGCGCGGGGTTCCTAGAGGATGCTGCCACCTCCATCCCCTTGCGTCACGGCCG
gtgtaac putative branch site (score: 3)
aagtttaaat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaggagaggaaagtttcctctggaatttcatactgcatgttatatctttgccaagttggtggtcttagtgtgatactgtgattaatttggaccgatgaagatatgtgtattgaatttttctttgcaagtttaaatcagtgtaacactatgaatgtgagcgtgtgaatgcagCTTGTAGTGAAGCTTTGTTGAGCTTACGCAAAGCAGAGAAGGGCATCGGCGCGGGGTTCCTAGAGGATGCTGCCACCTCCATCCCCTTGCGTCACGGCCG
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