Sequence
atgc intronic sequence ATGC exonic sequenceTGACAAGTTGAAAGAAGTAAAAGTTGCTGATGCTTTAAAGCACCCGAACTGGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAGgtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g01710.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g01710.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G056975_T02 (Zea mays), 5'ss of exon 8
TGACAAGTTGAAAGAAGTAAAAGTTGCTGATGCTTTAAAGCACCCGAACTGGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAGgtgtt-tgcagta--aactttc-----agaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacag
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TGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAAGCATCCAAACTGGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAGgtgtcatagagctccatcttttttgaaaaaaaaatctttaatccatatttattat-taaacactaaattgacgacttggtct-tgtag
upper sequence: LOC_Os01g01710.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G036290_T01 (Zea mays), 5'ss of exon 8
TGACAAGTTGAAAGAAGTAAAAGTTGCTGATGCTTTAAAGCACCCGAACTGGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAGgtgt-ttgcagta--aactttcagaattttactgaggtcatgttggcagtatttg-cactaaaatgatcacttgattcatacag
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TGACAGGCTGAAAGATGTAAAAGTAGCTGACGCTTTAAAGCATCCAAACTGGAATATGGGAAAGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAGgtgtcttagagctccagcttttttaaatgtgtttaatccttatttattatgttaaacactaaagtgacaacttggtat-tgtag
upper sequence: LOC_Os01g01710.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA17G09740.1 (Glycine max), 5'ss of exon 8
TGACAAGTTGAAAGAAGTAAAAGTTGCTGATGCTTTAAAGCACCCGAACTGGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAGgtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacag-----------------------------------------
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TGATAAACTGAAAGATGTTAAAGTTGCTGATGCATTAAAACATCCTAACTGGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgttt-----gtttctttttttatgtcaacatattggacgcaaatagcctttttataaatctgtttaattatgtggtatgaatttcctagctataaggtaaatttcttatacttcttcacag
upper sequence: LOC_Os01g01710.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA05G02190.1 (Glycine max), 5'ss of exon 8
TGACAAGTTGAAAGAAGTAAAAGTTGCTGATGCTTTAAAGCACCCGAACTGGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAGgtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacag-------------------------------------
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TGATAAACTGAAAGATGTTAAAGTTGCTGATGCATTAAAACATCCTAACTGGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGg--tttgc--ttctttttttatgtcatattgaatgaaaagagccattttataaatctgtttaattatgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacag
upper sequence: LOC_Os01g01710.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT5G62790.1 (Arabidopsis thaliana), 5'ss of exon 8
TGACAAGTTGAAAGAAGTAAAAGTTGCTGATGCTTTAAAGCACCCGAACTGGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAGgtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgc--actaaaatgatcacttgattcatacag----
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CGAAAAGCTAAAGGAAGTTAAAGTAGCGGATGCGTTGAAGCATCCAAACTGGAACATGGGAAAGAAAATCACTGTGGACTCTGCTACGCTTTTCAACAAGgttaagattattttctcctaaggttaaactctgattttgaaaatacctttgatcaaggtagatgagttcttgattttttgaaacag
upper sequence: LOC_Os01g01710.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv17s0000g08390.t01 (Vitis vinifera), 5'ss of exon 8
TGACAAGTTGAAAGAAGTAAAAGTTGCTGATGCTTTAAAGCACCCGAACTGGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAGgtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcact-tgattcatacag------------------------------
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TGATAAATTGAAAGAAGCTAAAGTTTCAGATGCTTTGAAGCATCCTAACTGGAATATGGGGAAAAAGATCACGGTTGACTCAGCTACCCTTTTCAATAAGgtttgtcccttttttggtgtctctattcttgattacatgc-accaatatgtgaatgaatctactcactatggtctgagttgcaacaaataccttgttttcctttttgacagMapped 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|58694512|gb|CK083199.1|CK083199EST: GGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAG GGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGAC
genomic: GGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAGgtgtttgcag ... attcatacagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGACAAGTTGAAAGAAGTAAAAGTTGCTGATGCTTTAAAGCACCCGAACTGGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACATTATTCAACAAGgtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG