Sequence
atgc intronic sequence ATGC exonic sequenceCCATAGTCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGGTGAGGAGGTTTGCCTCCGAGTTTGATTCTCTGAACCTGCCGCTCAACATACTCATgtaagaacagaaatactccctccgtacttataaagaaagtcatttaagaaaacgacacggtcttcaaaacacaactttgatttattatttctataaaaat...
Basic information
species | Oryza sativa |
transcript | LOC_Os10g40000.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os10g40000.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G464885_T01 (Zea mays), 5'ss of exon 2
CCATAG-TCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGGTGAGGAGGTTTGCCTCCGAGTTTGATTCTCTGAACCTGCCGCTCAACATACTCATgtaagaacaga----aatactccctccg--tacttataaagaaagtcatttaagaaaacgacacggtcttcaaaacacaactttgatttattatttctataaaaat--------
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-CACGGATTGACGTTCTGGAGCTGGACCTCAGCTCCATAGCTTCCGTAAGGAGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaagtaccaatcctactacttcgtcgtgccactgctatcacgagctgtcaaaagccagcctaaaatcatagtagtatgtgtttggctggttgacttggtgttcttttcgacag
upper sequence: LOC_Os10g40000.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G128577_T01 (Zea mays), 5'ss of exon 2
CCATAGTCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGGTGAGGAGGTTTGCCTCCGAGTTTGATTCTCTGAACCTGCCGCTCAACATACTCATgtaagaacag--aaatactccctccgtacttataaagaaagtcatttaagaaaacgacacggtcttcaaaacacaactttgatttattatttctataaaaat
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CAAGAATCGACGTTCTGGAGCTGGACCTCAGCTCCATAGCTTCCGTGAGGAGATTCGCCTCCGAGTTCGACTCTCTCAAACTGCCCCTCAACATTCTCATgtaagaagggcgaacaaatctttctagtcttaggttttgtttggattgtcgttagctgatagaatttagctagctaat--agtatatgactgatattaattcMapped 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|112786210|gb|EE592281.1|EE592281EST: AGGTTTGCCTCCGAGTTTGATTCTCTGAACCTGCCGCTCAACATACTCAT TAACAACGCTGGAATCAAGGCATGGGGCTGCACACGGTCCGTTGACGGCCT
genomic: AGGTTTGCCTCCGAGTTTGATTCTCTGAACCTGCCGCTCAACATACTCATgtaagaacag ... gtgacgacagTAACAACGCTGGAATCAAGGCATGGGGCTGCACACGGTCCGTTGACGGCCT
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 |
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CCATAGTCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGGTGAGGAGGTTTGCCTCCGAGTTTGATTCTCTGAACCTGCCGCTCAACATACTCATgtaagaacagaaatactccctccgtacttataaagaaagtcatttaagaaaacgacacggtcttcaaaacacaactttgatttattatttctataaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctccg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataaaaa