Sequence
atgc intronic sequence ATGC exonic sequenceCTAGGATACGAGATCCGTTCTACCACTGTCCATGAACAGATGATGCAAATGTGGAAAAGCAATTTTAATGTGAAAACCGTCTCGAAATCGAAGgtacacacacttcagagttcatcttatcagaactcccttcccttgtcatttatctgtttctgcatcagtgcaaaaggtattctctaccatcacgctgttcttgaattctaacacag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g57330.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g57330.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G013981_T03 (Zea mays), 5'ss of exon 7
-------CTAGGATACGAGATCCGTTCTACCACTGTCCATGAACAGATGATGCAAATGTGGAAAAGCAATTTTAATGTGAAAACCGTCTCGAAATCGAAGgtacacacacttcagagttcatcttatcagaactcccttcccttgtcatttatctgtttctgcatcagtgcaaaaggtattctctaccatcacgctgttcttgaattctaacacag
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TCCACAGCTAGGGTACGAGATCCGTTCGACAACTGTCCATGAGAAGATGATGGAAATGTGGAAAAGCAATTTCATTGTGAAAACGGTCTCTAGATCGAAGgtatggaaatgtggaaaagtaatttaagataac-------ccaagtcttgtattcatgtctgcatcagttccggggcttatatatatgcttacaatgt----gtattctgagacag
upper sequence: LOC_Os02g57330.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G471805_T01 (Zea mays), 5'ss of exon 8
CTAGGATACGAGATCCGTTCTACCACTGTCCATGAACAGATGATGCAAATGTGGAAAAGCAATTTTAATGTGAAAACCGTCTCGAAATCGAAGgtacacacacttcagagttcatcttatcagaactcccttcccttgtcatttatctgtttctgcatcagtgcaaaaggtattctctaccatcacgctgttcttgaattctaacacag
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CTAGGATACGAGATCCGTTCGGCCACCGTCCATGAGAAGATGATGGAAATGTGGAAAAGCAATTTCATTGTGAAAACCGTCTCTAAATCGAAGgtatggatatgtggagaagtggtttcagacaacgcaagtctcgtattgat-gtttgct-----gtcagttccgggactgatatatatgcttatgatgt----gtattctgagacag
upper sequence: LOC_Os02g57330.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G013981_T02 (Zea mays), 5'ss of exon 7
CTAGGATACGAGATCCGTTCTACCACTGTCCATGAACAGATGATGCAAATGTGGAAAAGCAATTTTAATGTGAAAACCGTCTCGAAATCGAAGgtacacacacttcagagttcatcttatcagaactcccttcccttgtcatttatctgtttctgcatcagtgcaaaaggtattctctaccatcacgctgttcttgaattctaacacag
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CTAGGGTACGAGATCCGTTCGACAACTGTCCATGAGAAGATGATGGAAATGTGGAAAAGCAATTTCATTGTGAAAACGGTCTCTAGATCGAAGgtatggaaatgtggaaaagtaatttaagataac-------ccaagtcttgtattcatgtctgcatcagttccggggcttatatatatgcttacaatgt----gtattctgagacagMapped 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|27576395|gb|CA999089.1|CA999089EST: TGCAAATGTGGAAAAGCAATTTTAATGTGAAAACCGTCTCGAAATCGAAG ATGGATGTGAAATACCAACATCCTAGTATTCATCTTTACATAATGGACCCC
genomic: TGCAAATGTGGAAAAGCAATTTTAATGTGAAAACCGTCTCGAAATCGAAGgtacacacac ... tctaacacagATGGATGTGAAATACCAACATCCTAGTATTCATCTTTACATAATGGACCCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTAGGATACGAGATCCGTTCTACCACTGTCCATGAACAGATGATGCAAATGTGGAAAAGCAATTTTAATGTGAAAACCGTCTCGAAATCGAAGgtacacacacttcagagttcatcttatcagaactcccttcccttgtcatttatctgtttctgcatcagtgcaaaaggtattctctaccatcacgctgttcttgaattctaacacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA