Sequence
atgc intronic sequence ATGC exonic sequencegtaagctgctaagcattctatgcatgtgttactctgcgtaattatatttgaaattcgaattatcaggattaaaatacctctctcagGGTCGTTGAGGATTTCAGAGACTGGACGAATTGGCTGTTTTACCGAGGTGGTATTGGGGTTAAGGGAGAAGAAAGTTGGGAAGCCTGGTGGGATGAAGAA
Basic information
species | Oryza sativa |
transcript | LOC_Os03g02756.2 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G453794_T01 (Zea mays), 3'ss of exon 11
gtaagctgctaagcattctatgcatgtgt-tactctgcgtaattatatttgaaattcgaattatcaggattaaaatacctctctc----agGGTCGTTGAGGATTTCAGAGACTGGACGAATTGGCTGTTTTACCGAGGTGGTATTGGGGTTAAGGGAGAAGAAAGTTGGGAAGCCTGGTGGGATGAAGAA
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gtaagcagccaagcattttgtgtatctatgtactataagt--tcaaattgtcattatgag--attagatttcaaacccttctccctcttagGATTGTTGAGGATTTCAGAGACTGGACAAATTGGCTGTTTTATCGAGGTGGTATTGGTGTTAAAGGAGAAGAAAGCTGGGAAGCTTGGTGGGAAGAAGAA
upper sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA10G44150.1 (Glycine max), 3'ss of exon 46
gtaagctgctaagcattctatgcatgtgttactctgcg-taattatatttgaaattcgaattatcaggattaaaatacctctctcagGGTCGTTGAGGATTTCAGAGACTGGACGAATTGGCTGTTTTACCGAGGTGGTATTGGGGTTAAGGGAGAAGAAAGTTGGGAAGCCTGGTGGGATGAAGAA
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--------gtaagtattatctatttatcttgaactttgacaggcatgtctcatgatt--attttccctcacacagtgttttt-ttagGGTGGTGGAAGATTTCAGAGATTGGACAAATTGGCTACTCTACCGAGGTGGAATTGGTGTTAAGGGAGAAGAAAGCTGGGAAGCTTGGTGGGAAGAAGAA
upper sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 48
gtaagctgctaagcattctatgcatgtgttactctgcgtaattatatttgaaattcgaattatcaggattaaaatacctctctcagGGTCGTTGAGGATTTCAGAGACTGGACGAATTGGCTGTTTTACCGAGGTGGTATTGGGGTTAAGGGAGAAGAAAGTTGGGAAGCCTGGTGGGATGAAGAA
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gtaag-tattatctatt-tatctttgtattcttcctggca--tgtctcatgagtcatgattattttccttcacggtgcttttttagGGTGGTGGAAGATTTCAGAGATTGGACAAATTGGCTACTCTACCGAGGTGGAATTGGTGTTAAGGGAGAAGAAAGCTGGGAAGCTTGGTGGGAAGAAGAA
upper sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 12
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 43
gtaagctgctaagcattctatgcatgtgttactctg-cgtaattatatttgaaattcgaattatcaggattaaaatacctctctcagGGTCGTTGAGGATTTCAGAGACTGGACGAATTGGCTGTTTTACCGAGGTGGTATTGGGGTTAAGGGAGAAGAAAGTTGGGAAGCCTGGTGGGATGAAGAA
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--------gtaagtatcatttttctaattttctctctcatggatttgctc-atgttttattaaccat--ttgttttaccccttttagGACTGTGGAGGACTTTCGGGATTGGACAAACTGGCTTTTTTACAGAGGTGGAATTGGAGTTAAGGGAGGAGAAAGCTGGGAGGCTTGGTGGGATGAAGAAMapped 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|568436|gb|D39285.1|D39285EST: TGGCTTTTTGCTCCATACATATTCAATCCATCTGGATTTGAATGGCAGAA GGTCGTTGAGGATTTCAGAGACTGGACGAATTGGCTGTTTTACCGAGGTGG
genomic: TGGCTTTTTGCTCCATACATATTCAATCCATCTGGATTTGAATGGCAGAAgtaagctgct ... cctctctcagGGTCGTTGAGGATTTCAGAGACTGGACGAATTGGCTGTTTTACCGAGGTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctgcgtaattatatttgaaattcgaattatcaggattaaaatacctctctcagGGTCGTTGAGGATTTCAGAGACTGGACGAATTGGCTGTTTTACCGAGGTGGTATTGGGGTTAAGGGAGAAGAAAGTTGGGAAGCCTGGTGGGATGAAGAA
tacctctctc CT-rich tract
taattatatttgaaat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctgctaagcattctatgcatgtgttactctgcgtaattatatttgaaattcgaattatcaggattaaaatacctctctcagGGTCGTTGAGGATTTCAGAGACTGGACGAATTGGCTGTTTTACCGAGGTGGTATTGGGGTTAAGGGAGAAGAAAGTTGGGAAGCCTGGTGGGATGAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA