Sequence
atgc intronic sequence ATGC exonic sequenceATTGAAGTTCCTGTTGGGAGAGGGAAACCACCGGTACTTGTTGACAAAGATGAGGGCCTGGACAAGgtacaatctatatagcaaatatggcacgataaactaagtcttgtaatttagtcaacattcacctgtagctgtaaattgcatgtttccaagcataacttgg...
Basic information
species | Oryza sativa |
transcript | LOC_Os09g07830.3 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os09g07830.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G085474_T02 (Zea mays), 5'ss of exon 8
-ATTGAAGTTCCTGTTGGGAGAGGGAAACCACCGGTACTTGTTGACAAAGATGAGGGCCTGGACAAGgtacaatctatatagcaaatatggcacgataa-actaagtcttgtaatttagtcaacattcacctgtagctgtaaattgcatgtttccaagcataacttgg-----------------------------------------------
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GATTGAAGTTCCTGTTGGGAGAGGAAAACCACCTGTACTTATTGAGAAAGATGAAAGCCTGGATAAGgtaaatttcctcatgcaacaaagacataagactggcatgccctttaattca-ttattcttc--ctatggttgcaacaggcctccttacata-gggacttgtgcagatgattattttactgatgccatgcaatttcttgtgtctcttag
upper sequence: LOC_Os09g07830.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G085474_T04 (Zea mays), 5'ss of exon 8
ATTGAAGTTCCTGTTGGGAGAGGGAAACCACCGGTACTTGTTGACAAAGATGAGGGCCTGGACAAGgtacaatctatatagcaaatatggcacgataa-actaagtcttgtaatttagtcaacattcacctgtagctgtaaattgcatgtttccaagcataacttgg-----------------------------------------------
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ATTGAAGTTCCTGTTGGGAGAGGAAAACCACCTGTACTTATTGAGAAAGATGAAAGCCTGGATAAGgtaaatttcctcatgcaacaaagacataagactggcatgccctttaattca-ttattcttc--ctatggttgcaacaggcctccttacata-gggacttgtgcagatgattattttactgatgccatgcaatttcttgtgtctcttagMapped 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|33678061|gb|CF306300.1|CF306300EST: GGAGAGGGAAACCACCGGTACTTGTTGACAAAGATGAGGGCCTGGACAAG TTTGACCCAGTGAAACTGAAGAAGCTCCGTCCTAGTTTCAAGGAGAATGGT
genomic: GGAGAGGGAAACCACCGGTACTTGTTGACAAAGATGAGGGCCTGGACAAGgtacaatcta ... tgcctcttagTTTGACCCAGTGAAACTGAAGAAGCTCCGTCCTAGTTTCAAGGAGAATGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTGAAGTTCCTGTTGGGAGAGGGAAACCACCGGTACTTGTTGACAAAGATGAGGGCCTGGACAAGgtacaatctatatagcaaatatggcacgataaactaagtcttgtaatttagtcaacattcacctgtagctgtaaattgcatgtttccaagcataacttgg
- - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - AAGATG