Sequence
atgc intronic sequence ATGC exonic sequenceTCTTGCAATGGGGAAAGTTGATCTGATGCATCCAGATCTAGCAATAGATCCTCTTGGAATTTTGCGACCAGCAAGCAAGTTGACACACCAGCTTCCTCTGgtatagtgaacccaacgcagctctcttaatctactttatattttttagttatggctctgaacaaaggatttgcttgttttacag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g07080.3 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g07080.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G124051_T01 (Zea mays), 5'ss of exon 10
TCTTGCAATGGGGAAAGTTGATCTGATGCATCCAGATCTAGCAATAGATCCTCTTGGAATTTTGCGACCAGCAAGCAAGTTGACACACCAGCTTCCTCTGgtatagtgaacccaacgcagct-----ctcttaatctactttatattttttagttatggctctgaacaaaggatttgcttgttttacag
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TCTTGCAAGGGGCAAAGTTGATCATTTGCATCCAGATCTAGCAATAGATCCTCTTGGAATTTTGCGCCCACTAAGCAAGCTGACACACCAGCTTCCTCTGgtacgttcaatttatcatggatattacctatcggtttcctttttttattcttgttgtggctcttaataaagtttttgcttgttc-gtag
upper sequence: LOC_Os03g07080.3 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv08s0007g07020.t01 (Vitis vinifera), 5'ss of exon 9
TCTTGCAATGGGGAAAGTTGATCTGATGCATCCAGATCTAGCAATAGATCCTCTTGGAATTTTGCGACCAGCAAGCAAGTTGACACACCAGCTTCCTCTGgtatagtga--acccaacgcagc-tctcttaatctactttatattttttagttatg-gctctgaacaaaggatttg--cttgttttacag-----------------------------------------------------
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TCTTGCGATGGGAAAAGTGGATCCAATGCATCCAGATTTAGCAATAGACCCTCTTGGAATTTTGCGCCCTGCCAGCAAGCTAACACATCAGCTGCCTCTGgtaaacttattgtttatcattgcatggctttaagtgattaagattgatcaaatgggcagaagggacaaggcattgagatttgtattaataaatgatgtttgctttgcgtggcttgtgatggttgtgacactgtgttgttacagMapped 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|29678434|gb|CB674709.1|CB674709EST: CTCTTGGAATTTTGCGACCAGCAAGCAAGTTGACACACCAGCTTCCTCTG GTGAGTGCGTACTCTTCATTTGCAAGGATGGTTGGTGCTGGTTATGATTTG
genomic: CTCTTGGAATTTTGCGACCAGCAAGCAAGTTGACACACCAGCTTCCTCTGgtatagtgaa ... tgttttacagGTGAGTGCGTACTCTTCATTTGCAAGGATGGTTGGTGCTGGTTATGATTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTTGCAATGGGGAAAGTTGATCTGATGCATCCAGATCTAGCAATAGATCCTCTTGGAATTTTGCGACCAGCAAGCAAGTTGACACACCAGCTTCCTCTGgtatagtgaacccaacgcagctctcttaatctactttatattttttagttatggctctgaacaaaggatttgcttgttttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG