Sequence
atgc intronic sequence ATGC exonic sequenceGATGCACCAGAAGCAGATTTTGTTGATGGAACCAAATCCAACAGTGTGGTTGCCAGCAAAGATCGAGTCTCTGAATGGCTTTGGACACTGCACCGAATTGgtatgctctattttttcttcacttcatcatgcaattacagtggtatcttgtgattatgttctaatttgcaaaacctattacag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g01010.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g01010.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G031043_T01 (Zea mays), 5'ss of exon 6
GATGCACCAGAAGCAGATTTTGTTGATGGAACCAAATCCAACAGTGTGGTTGCCAGCAAAGATCGAGTCTCTGAATGGCTTTGGACACTGCACCGAATTGgtatgctctattttttcttcacttcatcatgcaattacagtggtatcttgtgattatgttctaatttg---caaaacctattacag------
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GATGCACCAGAATCAGATTTAGTTGATGGAATGAAATCAAATGGTTCAATAGCTGACAAAGATAGAGTCTCTGAATGGCTTTGGACACTGCATCGAATTGgtatgtt---tatattcttaatt----cacacaattgcagtggtctcttgtgattgtattctagttagggataaaaaaaacttttgatgcag
upper sequence: LOC_Os01g01010.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT2G43490.2 (Arabidopsis thaliana), 5'ss of exon 5
GATGCACCAGAAGCAGATTTTGTTGATGGAACCAAATCCAACAGTGTGGTTGCCAGCAAAGATCGAGTCTCTGAATGGCTTTGGACACTGCACCGAATTGgtatgctctattttttcttcacttcatcatgcaattacagtggtatcttgtgattatgttctaatttgcaaaacctattacag-----------------------
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GATGTCCCTGAAATGGCATCAGTAAAGGACACTCCCTCTCGTGTTGGGAATGTCACGGAAGATCGAGTGTCTGAATGGCTTTGGACTTTGCATCGAATAGgtaggaattattccttgtctctttttttcgataact-tgcaaaaatcttccttttctgtcccatcttgtat--cttttcatagttaaaactttttcatttcctcag
upper sequence: LOC_Os01g01010.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT3G59570.1 (Arabidopsis thaliana), 5'ss of exon 5
GATGCACCAGAAGCAGATTTTGTTGATGGAACCAAATCCAACAGTGTGGTTGCCAGCAAAGATCGAGTCTCTGAATGGCTTTGGACACTGCACCGAATTGgtatgctctattttttcttcactt-catcatgcaattacagtggtatcttgtgattatgttctaatttgcaaa--acctattacag---------------------------------
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GATGTCCCTGAAACGCCGTCGGCAAGGGAGACTCATACTCGTGGTGGGACTGTAAAGGAAGATCGAGTCTCTGAATGGCTTTGGACATTGCACCGGATAGgtaccacttgtgcgcatttcttttatttcaagatcttacag-gaagtcttgcttttcagtttcagtctgcacattaatggtcactaatccgaattaaaaattgctttttgtttcctcagMapped 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|58689012|gb|CK077699.1|CK077699EST: TGCCAGCAAAGATCGAGTCTCTGAATGGCTTTGGACACTGCACCGAATTG TGGTTGATGTGGTTAGAACGGATAGTCATCTTGATTTCTATGGAGAATCAA
genomic: TGCCAGCAAAGATCGAGTCTCTGAATGGCTTTGGACACTGCACCGAATTGgtatgctcta ... cctattacagTGGTTGATGTGGTTAGAACGGATAGTCATCTTGATTTCTATGGAGAATCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGCACCAGAAGCAGATTTTGTTGATGGAACCAAATCCAACAGTGTGGTTGCCAGCAAAGATCGAGTCTCTGAATGGCTTTGGACACTGCACCGAATTGgtatgctctattttttcttcacttcatcatgcaattacagtggtatcttgtgattatgttctaatttgcaaaacctattacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG