Sequence
atgc intronic sequence ATGC exonic sequenceGAGACCTGCTAGAGAAGGTGATATACCAGTCAGGGTTAAGAATTCGTACAACCCTAAAGCTCCAGGCACCCTGATCACTAAACAAAGAGAGATGGATAAGgtctgtagcagattaattaaaacatgttctcacatcagtaccattcaactctcgggccatggattttatttctattgttctttatttttctctggatag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g70300.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G166366_T01 (Zea mays), 5'ss of exon 3
GAGACCTGCTAGAGAAGGTGATATACCAGTCAGGGTTAAGAATTCGTACAACCCTAAAGCTCCAGGCACCCTGATCACTAAACAAAGAGAGATGGATAAGgtctgtagcagattaattaaaacatgttctcacatcagtaccattcaactctcgggccatggattttatttctattgttctttatttttctctggatag
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GATACCTGCTAGAGAAGGTGATATTACAGTTAGGGTTGAGAATTCGTACAACTGTAAGGCTCTAGGCACCCTTATTACCAGACAAAGAGACATAAATAAGgtctgtagtagataactttaaatatatcctcacgtctgc----ttgacttttaaggctttgattttttgtccctcttttcactactag-----------
upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G700866_T02 (Zea mays), 5'ss of exon 9
GAGACCTGCTAGAGAAGGTGATATACCAGTCAGGGTTAAGAATTCGTACAACCCTAAAGCTCCAGGCACCCTGATCACTAAACAAAGAGAGATGGATAAGgtctgtagcagattaattaaaacatgttctcacatcagtaccattcaactctcgggccatggattttatttctattgttctttatttttctctggatag
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GAGACCTGCTAGAGAAGGTGATATTCCAGTTATGGTTAAGAATTCATACAACGCTAAAGCTCCAGGAACCATTATTACAAGACAAAGGGACATGGATAAGgtatgtagtaggtaacttcaaatatatcctcacatc-----tgcttgactttcgaggcattgattttttcgcccctctttttcactactag--------
upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G300862_T05 (Zea mays), 5'ss of exon 8
GAGACCTGCTAGAGAAGGTGATATACCAGTCAGGGTTAAGAATTCGTACAACCCTAAAGCTCCAGGCACCCTGATCACTAAACAAAGAGAGATGGATAAGgtctg-tagcagattaattaaaacatgttctcacatcagtaccattcaactctcgggccatggattttatttctattgttctttatttttctctggatag
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GAGACCTGCTAGAGAAGGTGATATTCCAGTTAGGGTTAAGAATTCATACAACCCTAAAGCTCCAGGCACCCTTATTACCAGACAAAGAGACATGGATAAGgtctggtagtaggtaacttcaaatatatcctcacatc-----tgcttgactttcgaggcattgatttttgcgcccctctttttcactactag--------
upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G169046_T01 (Zea mays), 5'ss of exon 1
GAGACCTGCTAGAGAAGGTGATATACCAGTCAGGGTTAAGAATTCGTACAACCCTAAAGCTCCAGGCACCCTGATCA-------CTAAACAAAGAGAGATGGATAAGgtctgtagcagattaattaaaacatgttctcacatcagtaccattcaactctcgggccatggattttatttctattgttctttatttttctctggatag
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-------GCTAGAGAAGGTGATATTCCAGTTAGGGTTAAGAATTCATACAACCCTAAAGCTCCAGGAACCCTTATTAGTTATTACCAGACAAAGGGACATGGATAAGgtctgtagtaggtaacttcaaatatatcctcacatccgcttgat---------gaggcattgattttttcgcccctctttttcactactag--------Mapped 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|29669913|gb|CB666188.1|CB666188EST: ACCCTAAAGCTCCAGGCACCCTGATCACTAAACAAAGAGAGATGGATAAG GTTGTGCTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGATATA
genomic: ACCCTAAAGCTCCAGGCACCCTGATCACTAAACAAAGAGAGATGGATAAGgtctgtagca ... ctctggatagGTTGTGCTAACTAGCATAGTGCTCAAGTCAAATGTCACTATGTTGGATATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGACCTGCTAGAGAAGGTGATATACCAGTCAGGGTTAAGAATTCGTACAACCCTAAAGCTCCAGGCACCCTGATCACTAAACAAAGAGAGATGGATAAGgtctgtagcagattaattaaaacatgttctcacatcagtaccattcaactctcgggccatggattttatttctattgttctttatttttctctggatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA