Sequence
atgc intronic sequence ATGC exonic sequenceAATCAAGGTAACATTGCAAAATGGAGAAAACAAGAAGGTGAAAAGgttaggattttgctctgggatatttcataatagaattgaaacatcttgtttccaattcagagttctttatttcttttttatatattagtttcgatcaaaagttatctgttgtttgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os06g30460.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g30460.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G082664_T01 (Zea mays), 5'ss of exon 7
AATCAAGGTAACATTGCAAAATGGAGAAAACAAGAAGGTGAAAAGgttaggattttgct--ctgggatatttcataatagaattg---aaacatcttgtttccaattcagagttctttatttcttttttatatattagtttcgatcaaaagttatctgttgtttgcag--------------
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AATCAAGGTAACATCGCGAAATGGAGAAAACAGGAAGGGGACAAGgttgtgcttttgctagctgttatttttttaaattcaataagaaaaatatcctatttccagcttagggtttcccattttttttgttta-atgtgttttagttctgagaacactatcgttgaactttatgttgttgcag
upper sequence: LOC_Os06g30460.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA20G33080.1 (Glycine max), 5'ss of exon 10
AATCAAGGTAACATTGCAAAATGGAGAAAACAAGAAGGTGAAAAGgttaggattttgctctgggat---atttcataatagaattgaaacatcttgtttccaattcagagt-----------tctttatttcttttttatatattagtttcgatcaaaagttatctgttgtttgcag---
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AACCAAGGAAACATTGCTAAATGGAGGAAACAAGAAGGAGACAAGgttagtgttttaacctaaggttctaatagagattgtacttttcatatatttttaatattttaaaatatgaacatgagtcattaatgcccatattttctttatctgatatgcaataacatttaatttatctaacag
upper sequence: LOC_Os06g30460.3 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv13s0074g00150.t01 (Vitis vinifera), 5'ss of exon 6
AATCAAGGTAACATTGCAAAATGGAGAAAACAAGAAGGTGAAAAGgttaggattttgctctgggatatttcataatagaa----ttgaaacatcttgt-ttccaattcagagttctt-tatttcttttttatatattagtttcgatcaa--aagttatctgttgtttgcag----------------------------
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ACTCAAGGTAACATTGCAAAATGGAGGAAGAAAGAAGGAGATAAGgtcag--ttatattcaaaaagttgatatgatgtgagagtttaaagcttcttaagttccaatttgatataattataaataatgacaataagaaattttcacttgatgagaccatttgttgatttcatctatgaatttggtgatttaatctaacagMapped 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|33674807|gb|CF303046.1|CF303046EST: AATCAAGGTAACATTGCAAAATGGAGAAAACAAGAAGGTGAAAAG ATAGAAGTTGGTGATGTGATCTGTG
genomic: AATCAAGGTAACATTGCAAAATGGAGAAAACAAGAAGGTGAAAAGgttaggattt ... ttgtttgcagATAGAAGTTGGTGATGTGATCTGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATCAAGGTAACATTGCAAAATGGAGAAAACAAGAAGGTGAAAAGgttaggattttgctctgggatatttcataatagaattgaaacatcttgtttccaattcagagttctttatttcttttttatatattagtttcgatcaaaagttatctgttgtttgcag
- - - - - - - - - - TGGAGA
- - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - AAGAAG