Sequence
atgc intronic sequence ATGC exonic sequenceCGTGGGGAGATTTGCATCAGAGGGGACACCTTGTTCTCAGGGTACCACAAACGAGAAGACCTCACCAAGGAAGTTTTAGTCGATGGATGGTTTCACACAGgtatgccaacatatgcatttgaacaaatgtgtttgtcactaccattcaagaaaggcaagagaaatccagagctttcatggacctgttttgccaagaagcg...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g48910.2 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g48910.1 (Oryza sativa), 5'ss of exon 15
lower sequence: GRMZM2G152127_T01 (Zea mays), 5'ss of exon 15
CGTGGGGAGATTTGCATCAGAGGGGACACCTTGTTCTCAGGGTACCACAAACGAGAAGACCTCACCAAGGAAGTTTTAGTCGATGGATGGTTTCACACAGgtatgccaacatatgcatttgaacaaatgtgtttgtcactaccattcaagaaaggcaagagaa--atccagagctttcatggacctgttttgccaagaagcg---
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CGTGGGGAAATTTGCATCAGAGGGGACACCTTGTTCTCGGGATACTACAAGCGAGAGGACCTAACCAAAGAAGTCTTGGTCGATGGCTGGTTCCACACAGgtac-----catcggtccctgttccagtattcctccagtgtctgatcggacgtgtccatgtcagcatcactgtgagtcaagaaaatgtcaagggaaagaaaatgt
upper sequence: LOC_Os01g48910.1 (Oryza sativa), 5'ss of exon 15
lower sequence: AT4G11030.1 (Arabidopsis thaliana), 5'ss of exon 15
CGTGGGGAGATTTGCATCAGAGGGGACACCTTGTTCTCAGGGTACCACAAACGAGAAGACCTCACCAAGGAAGTTTTAGTCGATGGATGGTTTCACACAGgta--tgccaacatatgcatttgaacaaatgtgtttgtcactaccattcaagaaaggcaagagaaatccagagctttcatggacctgttttgccaagaagcg---------
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CGAGGCGAAATATGCATACGAGGAAAAACTTTATTTTCAGGGTACTACAAACGTGAAGACCTCACAAAAGAGGTTTTTATCGACGGATGGTTGCACACAGgttactaaaaacctcaacactttgatcattttgctttcctat---atatagcattttaaatatcagttcttatttacctt--atttaatttaactatgtgtatcttaccag
upper sequence: LOC_Os01g48910.1 (Oryza sativa), 5'ss of exon 15
lower sequence: Vv02s0025g01410.t01 (Vitis vinifera), 5'ss of exon 15
CGTGGGGAGATTTGCATCAGAGGGGACACCTTGTTCTCAGGGTACCACAAACGAGAAGACCTCACCAAGGAAGTTTTAGTCGATGGATGGTTTCACACAGgtatgccaacatatgcatttgaac---aaatgtgtttgtcactaccattcaagaaaggcaagagaaatccagagctttcatg--gacctgttttgccaagaagcg
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CGTGGAGAAATATGCATACGAGGGAAAACCTTGTTCTCGGGATACTATAAACGTGAAGATCTCACCAAAGAGGTCTTGGTTGATGGATGGTTCCACACAGgtttgctcatattggcatttcttcttgaattaagttttgaggtcctctattttgtggattcgtttctttaacaaccttgctgatgacttatcttttcacag----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|86910803|gb|CI294794.1|CI294794EST: ACGAGAAGACCTCACCAAGGAAGTTTTAGTCGATGGATGGTTTCACACAG GAGACATTGGTGAGTGGCAGTCTGATGGAAGCATGAAGATCATTGATCGCA
genomic: ACGAGAAGACCTCACCAAGGAAGTTTTAGTCGATGGATGGTTTCACACAGgtatgccaac ... cttactgtagGAGACATTGGTGAGTGGCAGTCTGATGGAAGCATGAAGATCATTGATCGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGTGGGGAGATTTGCATCAGAGGGGACACCTTGTTCTCAGGGTACCACAAACGAGAAGACCTCACCAAGGAAGTTTTAGTCGATGGATGGTTTCACACAGgtatgccaacatatgcatttgaacaaatgtgtttgtcactaccattcaagaaaggcaagagaaatccagagctttcatggacctgttttgccaagaagcg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA