Sequence
atgc intronic sequence ATGC exonic sequencegtacgtacgccgcctctctctctttccctttcttccttgtctccggcgaggaggagtttgtgattccggcgtgtttgtgtttcagGTGGATTTGGTGGGCGGGTACTACGACGCCGGCGACAACGTCAAGTTCGGCCTGCCCATGGCGTTCTCGACGACGATGCTGGCGTGGAGCGTGCTCGACT
Basic information
species | Oryza sativa |
transcript | LOC_Os08g02220.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g02220.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G009025_T01 (Zea mays), 3'ss of exon 1
-----------------------------------------------gtacgtacgccgcctctctctctttccctttcttccttgtctccggcgag-gaggagtttgtgattccg---gcgtgtttgtgttt----------cagGTGGATTTGGTGGGCGGGTACTACGACGCCGGCGACAACGTCAAGTTCGGCCTGCCCATGGCGTTCTCGACGACGATGCTGGCGTGGAGCGTGCTCGACT
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gtaataatgcttctacctcctgctatagtgtatagaaacagcatggagta-gtagtctcttgctcgcactgtccacgtccacgaaggcaccgatgggcgatggccacctcacctcgattgtacatctatatccggacggagtgcagGTGGACCTGGTGGGCGGGTACTACGACGCCGGCGACAACGTCAAGTTCGGCCTGCCCATGGCGTTCACCACCACGATGCTGGCGTGGAGCGTGGCGGACA
upper sequence: LOC_Os08g02220.1 (Oryza sativa), 3'ss of exon 1
lower sequence: EFJ16113 (Selaginella moellendorffii), 3'ss of exon 1
gtacgtacgccgcctct-ctctctttccctttcttccttgtctccggcgaggaggagtttgtgattccggcgtgtttgtgtttcagGTGGATTTGGTGGGCGGGTACTACGACGCCGGCGACAACGTCAAGTTCGGCCTGCCCATGGCGTTCTCGACGACGATGCTGGCGTGGAGCGTGCTCGACT
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gtaccttagaatcttttgctcgtttgaaatgtttttcttgtggtttacctttctagtcgatcgattttcgc-----tgctgctcagGTGAATCTCACGGGAGGCTACTACGATTCAGGCGACAACGTCAAGTTTGGCTTCCCGATGGCGTTCACGATCACGCTGCTGTCGTGGAGCGTGGTGGAAT
upper sequence: LOC_Os08g02220.1 (Oryza sativa), 3'ss of exon 1
lower sequence: EFJ08014 (Selaginella moellendorffii), 3'ss of exon 1
gtac-gtacgccgcctctctctctttccctttcttccttgtctccggcgaggaggagtttgtgattccggcgtgtttgtgtttcagGTGGATTTGGTGGGCGGGTACTACGACGCCGGCGACAACGTCAAGTTCGGCCTGCCCATGGCGTTCTCGACGACGATGCTGGCGTGGAGCGTGCTCGACT
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gtaccatagaatcttttgctcgtttgaaatgtttttcttgtggtttacctttctagtcgatcgattttcgc-----tgctgctcagGTGAATCTCACGGGAGGCTACTACGATTCCGGCGACAACGTCAAGTTTGGCTTCCCGATGGCGTTCACGATCACGCTGCTGTCGTGGAGCGTGGTGGAATMapped 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|218487983|gb|FG959846.1|FG959846EST: GCATGCCGTGGCGCGCCGACTCCGGCCTCACCGACGGCGCCCAGTACAAT GTGGATTTGGTGGGCGGGTACTACGACGCCGGCGACAACGTCAAGTTCGGC
genomic: GCATGCCGTGGCGCGCCGACTCCGGCCTCACCGACGGCGCCCAGTACAATgtacgtacgc ... tgtgtttcagGTGGATTTGGTGGGCGGGTACTACGACGCCGGCGACAACGTCAAGTTCGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtacgccgcctctctctctttccctttcttccttgtctccggcgaggaggagtttgtgattccggcgtgtttgtgtttcagGTGGATTTGGTGGGCGGGTACTACGACGCCGGCGACAACGTCAAGTTCGGCCTGCCCATGGCGTTCTCGACGACGATGCTGGCGTGGAGCGTGCTCGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG