Sequence
atgc intronic sequence ATGC exonic sequenceGAAGCCCAAAGAATTATTCTTCTCTAGTGATTTATTTGCTATTGTGGAGCATACCAAGAATTATTTGGCTATCGAAGATGATGAAATTGTTCATATTAAGgtactcttcagctttctctgttgattcacctgccttatctgttctattttgcctttactttcttttttagaaagaaagatcatttttaatggggggcaat...
Basic information
species | Oryza sativa |
transcript | LOC_Os12g03720.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g03720.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G005849_T01 (Zea mays), 5'ss of exon 5
GAAGCCCAAAGAATTATTCTTCTCTAGTGATTTATTTGCTATTGTGGAGCATACCAAGAATTATTTGGCTATCGAAGATGATGAAATTGTTCATATTAAGgtactcttcagctttctctgttgattcacctgccttatctgttctattttgcctttactttcttt----tttagaaagaaaga--tcatttttaatggggggcaat---------------------------------------------------------------------------------------------
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AAAGCCCAAAGAATTATTCTTCTCCAGTGATCTATGTGCTATTGTAGAGCATACGAAGAACTACTTAGCTCTTGAAGATAATGAAATTGTTCATATTAAGgtattg------tttgtttgttattttacatgcatttgctggtttgtgttaccagtatttttttgaaggttcagctattataactttacagtttctaggcctcgataatcatcgatgcagttatcccctgccaacaacttaccatgatgttgtgtacaagaaatatagtctctaaccttctatgcctaattggtttaag
upper sequence: LOC_Os12g03720.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G005849_T03 (Zea mays), 5'ss of exon 4
GAAGCCCAAAGAATTATTCTTCTCTAGTGATTTATTTGCTATTGTGGAGCATACCAAGAATTATTTGGCTATCGAAGATGATGAAATTGTTCATATTAAGgtactcttcagctttctctgttgattcacctgccttatctgttctattttgcctttactttcttt----tttagaaagaaaga--tcatttttaatggggggcaat
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AAAGCCCAAAGAATTATTCTTCTCCAGTGATCTATGTGCTATTGTAGAGCATACGAAGAACTACTTAGCTCTTGAAGATAATGAAATTGTTCATATTAAGgtattg------tttgtttgttattttacatgcatttgctggtttgtgttaccagtatttttttgaaggttcagctattataactttacagtttctaggcctcgatMapped 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|58665483|gb|CK054169.1|CK054169EST: ATACCAAGAATTATTTGGCTATCAAAGATGATGAAATTGTTCATATTAAG GATGGCAGTGTGTCTATCCTTAAGTTT
genomic: ATACCAAGAATTATTTGGCTATCGAAGATGATGAAATTGTTCATATTAAGgtactcttca ... gccattgcagGATGGCAGTGTGTCTATCCTTAAGTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGCCCAAAGAATTATTCTTCTCTAGTGATTTATTTGCTATTGTGGAGCATACCAAGAATTATTTGGCTATCGAAGATGATGAAATTGTTCATATTAAGgtactcttcagctttctctgttgattcacctgccttatctgttctattttgcctttactttcttttttagaaagaaagatcatttttaatggggggcaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG