Sequence
atgc intronic sequence ATGC exonic sequenceGTGGTCTCTGCTTGAAAAATTTAGCTGCAGTGCATCAAAACTGCATCTGAAGCCTCGGAGATTCAAAACATTCGTAGAAGCATTGgtgcatgaccatttgttactttcccactcctttgtaactgtaaaaatgttcatttttgttttttttttctcatgtgatatatccaactttatag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g56234.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g56234.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G085427_T02 (Zea mays), 5'ss of exon 6
GTGGTCTCTGCTTGAAAAATTTAGCTGCAGTGCATCAAAACTGCATCTGAAGCCTCGGAGATTCAAAACATTCGTAGAAGCATTGgtgcatgaccatttgttactttcccactcctttgtaactgtaaaaatgttcatt-tttgttttttttttctcatgtgatatatccaactttatag-----
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GTGGTCTCTGCTTGAGAAATTTAGCTGCACTGCATCAAAGTTGCATCTCAAACCTCGGAGGTTCAAAACATTTGTAGAAGCACTGgtgagttgc--tttgtccccatgt--tccttttctcgttataaaa-cgtcgacagtttatttcttctttctcatgctatgtgtctccttttgtttgctag
upper sequence: LOC_Os03g56234.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G152319_T01 (Zea mays), 5'ss of exon 6
GTGGTCTCTGCTTGAAAAATTTAGCTGCAGTGCATCAAAACTGCATCTGAAGCCTCGGAGATTCAAAACATTCGTAGAAGCATTGgtgcatgaccat-ttgttactttcccac---tcctttgtaactgtaaaaatgttcatttttgttttttttttctcatgtgatatatccaactttatag-------
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GTGGTCTCTGCTTGAGAAATTTAGCTGCAGTGCATCAAAGCTGCACCTGAAGCCTCGGAGGTTCAAAACATTTGTAGAAGCATTGgtgagttgctttgtccccaactccccatgttttttttctcattataaaa-tgtttcagtttgtttcttctttctcatgctatgtgtatctccttttgtttgctag
upper sequence: LOC_Os03g56234.1 (Oryza sativa), 5'ss of exon 5
lower sequence: AT2G36960.3 (Arabidopsis thaliana), 5'ss of exon 6
GTGGTCTCTGCTTGAAAAATTTAGCTGCAGTGCATCAAAACTGCATCTGAAGCCTCGGAGATTCAAAACATTCGTAGAAGCATTGgtgcatgaccatttgttactttc--ccactcctttgtaactgtaaaaatgttcattt-ttgttttttttttctcatgtgatatatccaactttatag--
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GTGGTCTTTGCTTGAAAAGTATAGCTGCAAAGCTTCAAAACTTCATCTCAAGCCCCGGAGATTCAAACTATTTATAGAGGCCTTGgttagttggcaaatgcgaatttcgtttaacccaaaaccaccttggatttgacaaggaatcgtttacaaactattgtctaacaaaaccttttgcatgaagMapped 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|58666194|gb|CK054880.1|CK054880EST: CAAAACTGCATCTGAAGCCTCGGAGATTCAAAACATTCGTAGAAGCATTG GGAAATCAACTGCTAAAGGACAGGAATAAAACCAGAAAAAAGTGTCCACGA
genomic: CAAAACTGCATCTGAAGCCTCGGAGATTCAAAACATTCGTAGAAGCATTGgtgcatgacc ... aactttatagGGAAATCAACTGCTAAAGGACAGGAATAAAACCAGAAAAAAGTGTCCACGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGTCTCTGCTTGAAAAATTTAGCTGCAGTGCATCAAAACTGCATCTGAAGCCTCGGAGATTCAAAACATTCGTAGAAGCATTGgtgcatgaccatttgttactttcccactcctttgtaactgtaaaaatgttcatttttgttttttttttctcatgtgatatatccaactttatag
- - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC