Sequence
atgc intronic sequence ATGC exonic sequenceCGTAATCTTGTCAAATTGATTGGCATTTGCATTGAGCACAACAAAAGGTGTCTTGTTTATGAGCTTATACGCAATGGAAGTGTTGAATCTCACCTTCATGgtatgttctaaatatttgttactctgagccatgccaacaaagtgctttgtgctaaccgattctctttttttaaaag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g57080.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g57080.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G102163_T01 (Zea mays), 5'ss of exon 6
CGTAATCTTGTCAAATTGATTGGCATTTGCATTGAGCACAACAAAAGGTGTCTTGTTTATGAGCTTATACGCAATGGAAGTGTTGAATCTCACCTTCATGgtatgtt--ctaaatatttgttactctgagccatgccaacaaagtgctttgtgctaaccgattctctttttttaaaag-----------------------
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CGTAATCTTGTCAAATTGATTGGTATTTGCGTTGATCGGAGCAAAAGATGTCTTGTGTATGAGCTCATACGCAACGGAAGTGTGGAATCTCATCTTCATGgtatgcgggtcaaatagaaat-gctaggtctgatgactcttgaatggaaagcgttggctacaatactatccataaaataatcagatgaggcttatttaatc
upper sequence: LOC_Os02g57080.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G871520_T01 (Zea mays), 5'ss of exon 1
CGTAATCTTGTCAAATTGATTGGCATTTGCATTGAGCACAACAAAAGGTGTCTTGTTTATGAGCTTATACGCAATGGAAGTGTTGAATCTCACCTTCATGgtatgtt--ctaaatatttgttactctgagccatgccaacaaagtgctttgtgctaaccgattctctttttttaaaag-----------------------
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CGGAATCTTGTCAAATTGATTGGTATTTGCATTGAGCGGAGTAAAAGATGTCTTGTGTATGAGCTCATACGAAACGGAAGTGTGGAATCCCATCTTCATGgtatgccagccaaatagaaaaaa-tatggttaatgagccttgaatggaaagcgctgactacaataatccccataaaataatcagatgaggcttatttaatt
upper sequence: LOC_Os02g57080.1 (Oryza sativa), 5'ss of exon 6
lower sequence: EFJ20296 (Selaginella moellendorffii), 5'ss of exon 1
CGTAATCTTGTCAAATTGATTGGCATTTGCATTGAGCACAACAAAAGGTGTCTTGTTTATGAGCTTATACGCAATGGAAGTGTTGAATCTCACCTTCATGgtatgttctaaatattt-gttactctgagccatgccaacaaagtgctttgtgctaaccgattctctttttttaaaag
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CGTAATCTGGTGAAGCTTTTGGGCATTTGCATCGAAGAACACACACGATGCTTGGTTTTCGAGCTCATTTCAAATGGAAGTGTTGAATCCCACCTTCATGgtacgtgcaagctacttcatcgttgttagcatttatctatgactgcag-----------------------------
upper sequence: LOC_Os02g57080.1 (Oryza sativa), 5'ss of exon 6
lower sequence: EFJ23292 (Selaginella moellendorffii), 5'ss of exon 1
CGTAATCTTGTCAAATTGATTGGCATTTGCATTGAGCACAACAAAAGGTGTCTTGTTTATGAGCTTATACGCAATGGAAGTGTTGAATCTCACCTTCATGgtatgttctaaatattt-gttactctgagccatgccaacaaagtgctttgtgctaaccgattctctttttttaaaag
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CGTAATCTGGTGAAGCTTTTGGGCATTTGCATCGAAGAACACACACGATGCTTGGTTTTCGAGCTCATTTCAAATGGAAGTGTTGAATCCCACCTTCATGgtacgtgcaagctacttcatcgttgttagcgtttatctatgactgcag-----------------------------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|58685240|gb|CK073927.1|CK073927EST: TCTTGTTTATGAGCTTATACGCAATGGAAGTGTTGAATCTCACCTTCATG GTGCTGATAAGGCTAAGGGCATGCTGAACTGGGATGTTAGGATGAAAATTG
genomic: TCTTGTTTATGAGCTTATACGCAATGGAAGTGTTGAATCTCACCTTCATGgtatgttcta ... tttttaaaagGTGCTGATAAGGCTAAGGGCATGCTGAACTGGGATGTTAGGATGAAAATTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGTAATCTTGTCAAATTGATTGGCATTTGCATTGAGCACAACAAAAGGTGTCTTGTTTATGAGCTTATACGCAATGGAAGTGTTGAATCTCACCTTCATGgtatgttctaaatatttgttactctgagccatgccaacaaagtgctttgtgctaaccgattctctttttttaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG