Sequence
atgc intronic sequence ATGC exonic sequenceGTGACTGCATTTGCGTGTACCCTTGCGAAGCATAGGAAATCATCAGTCCTGGAAGCCAAGGATGTATTGCTGCACCTAGgttgataaccctcctctctgatgtgatagaatcaactttatttgcttattaaatctgaatatattttcatgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g62820.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g62820.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G149230_T02 (Zea mays), 5'ss of exon 5
GTGACTGCATTTGCGTGTACCCTTGCGAAGCATAGGAAATCATCAGTCCTGGAAGCCAAGGATGTATTGCTGCACCTAGgttgataa-ccctcctctctgatgtgatagaatcaactttattt-gcttattaaatctgaatatattttcatgcag
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GTGACTGCATTTGCGTGTACCTTGGCAAAGCACAGGAAATCATCAGTTGTCGAAGCCAAGGATGTGTTGCTGCACTTAGgtcagtaggttcaccacactctcatgcacgcatgtgcctcattttactcattaattttcaatttgatatcttgcag
upper sequence: LOC_Os01g62820.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G002276_T01 (Zea mays), 5'ss of exon 5
GTGACTGCATTTGCGTGTACCCTTGCGAAGCATAGGAAATCATCAGTCCTGGAAGCCAAGGATGTATTGCTGCACCTAGgttgataaccctcct---ctctgatgtg-atagaatcaactttatttgcttattaaatctgaatatattttcatgcag
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GTGACTGCATTTGCGTGTACCTTGGCAAAGCACAGGAAATCATCAGTTGTCGAAGCCAAGGATGTGTTGCTGCACTTAGgtcagtaggttcgccatactctcatgcacacatatgcctcttattttactcattaattttcaatttgatatcttgcagMapped 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|29624357|gb|CB629368.1|CB629368EST: GCATAGGAAATCATCAGTCCTGGAAGCCAAGGATGTATTGCTGCACCTAG NNNNNNNTTGGCACTTATCTGTTCCTGGTTTCTTAAGGGAGGACAAGAATC
genomic: GCATAGGAAATCATCAGTCCTGGAAGCCAAGGATGTATTGCTGCACCTAGgttgataacc ... tttcatgcagAAAAAAATTGGCACTTATCTGTTCCTGGTTTCTTAAGGGAGGACAAGAATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGACTGCATTTGCGTGTACCCTTGCGAAGCATAGGAAATCATCAGTCCTGGAAGCCAAGGATGTATTGCTGCACCTAGgttgataaccctcctctctgatgtgatagaatcaactttatttgcttattaaatctgaatatattttcatgcag
- - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC