Sequence
atgc intronic sequence ATGC exonic sequenceCCTAGATGGGGTGACCTCGATGTCAATCAGCATGTGAACAATGTTAAATATATTGGGTGGATCCTTGAGgtggttattcttgtcccttatattcattgtttagagaaaaataatttggctttatccttttatatggtacttcctttgtttcacaatgtaagtcatttta...
Basic information
species | Oryza sativa |
transcript | LOC_Os02g43090.5 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g43090.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM5G829544_T01 (Zea mays), 5'ss of exon 6
CCTAGATGGGGTGACCTCGATGTCAATCAGCATGTGAACAATGTTAAATATATTGGGTGGATCCTTGAGgtggttattcttg---tcccttatattcattgtttagagaaaaataatttggctttatccttttatatggtacttcctttgtttcacaatgtaagtcatttta
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CCTAGATGGGGTGACCTTGATGTCAACCAGCACGTGAATAACGTCAAGTATATCGGTTGGATCCTTGAGgtaatttcttcagggcccccttgcctgcctcttttcatcctatattcaatggcgccactgctctg-accatgtggtggctgttgga-gataccactggcatg-
upper sequence: LOC_Os02g43090.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA04G21910.1 (Glycine max), 5'ss of exon 6
CCTAGATGGGGTGACCTCGATGTCAATCAGCATGTGAACAATGTTAAATATATTGGGTGGATCCTTGAGgtggttattcttgtcccttatattcattgtttagagaaaaataatttggctttatcctttt-atatggtacttcc-tttgtttcacaatgtaagtcatttta
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CCCAGATGGAATGATCTAGATGTGAATCAGCATGTTAACAATGTGAAGTATGTTGGGTGGATTCTGGAGgtagtc-ttctgttcttgtattattattattctgtccttaatttcttttcttcttttggtggatatattagtaaggcttgtctgactggacagtttgaact-
upper sequence: LOC_Os02g43090.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA06G23560.1 (Glycine max), 5'ss of exon 6
CCTAGATGGGGTGACCTCGATGTCAATCAGCATGTGAACAATGTTAAATATATTGGGTGGATCCTTGAGgtggt----tattcttgtcccttatattcattgtttagagaaaaataatttg---gctttatccttttatatggtacttcctttgtttcacaatgtaagtcatttta
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CCCAGATGGCATGATCTAGATGTGAATCAGCATGTTAACAATGTGAAGTATGTTGGGTGGATTCTGGAGgtagtcttctgttcttgtttcatattattctgtcttgaatttctcttctttttttggtggatttattagcaaggctcatctgaccttttgcaaggcaggt-------
upper sequence: LOC_Os02g43090.4 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv11s0016g04480.t01 (Vitis vinifera), 5'ss of exon 6
CCTAGATGGGGTGACCTCGATGTCAATCAGCATGTGAACAATGTTAAATATATTGGGTGGATCCTTGAGgtggttattcttgtcccttatatt--cattgttta-gagaaaaataatttggctttatccttttatatggtacttcctttgtttcacaatgtaagtcatttta
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CCTAGATGGAGTGATTTAGATGTCAATCAGCATGTTAACAATGTTAAGTACATCGGTTGGATCCTTGAGgtaggttttgtggccaagcaaattatttttatttacaagtgctaaacccctgcttcacccagttgga-gcaagagaaatggattggaaatgcctggtatct--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|87022022|gb|CI259094.1|CI259094EST: ATGTCAATCAGCATGTGAACAATGTTAAATATATTGGGTGGATCCTTGAG AGTGCTCCAATTTCAGTACTGGAGAAGCATGAGCTTGCAAGCATGACGCTG
genomic: ATGTCAATCAGCATGTGAACAATGTTAAATATATTGGGTGGATCCTTGAGgtggttattc ... tttcccccagAGTGCTCCAATTTCAGTACTGGAGAAGCATGAGCTTGCAAGCATGACCCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTAGATGGGGTGACCTCGATGTCAATCAGCATGTGAACAATGTTAAATATATTGGGTGGATCCTTGAGgtggttattcttgtcccttatattcattgtttagagaaaaataatttggctttatccttttatatggtacttcctttgtttcacaatgtaagtcatttta
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaata