Sequence
atgc intronic sequence ATGC exonic sequenceGTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATgtgaggaatgctctgattggtgagtaatgaaataattcatttaaattcatctttttcctgaactgcgctggtgtacattttatggttttatccctcttgc...
Basic information
species | Oryza sativa |
transcript | LOC_Os07g08880.3 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g08880.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G097726_T02 (Zea mays), 5'ss of exon 3
GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATgtgaggaatgctctgattggtgagtaatg-aaataattcatttaaattcatctttttcctgaactgcgctggtgtacattt-tatggttttatccctcttgc-----------------
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GTTTTGCAAGTGCGAGATGCCATACAATCCAGATGACCTTATGATCCAATGCGAGGAATGTTCTGACTGgtgagcattatagatgaagcatgctggcctaatatttttttatacagcatttacctccttttctctggtgcattctttaattcaattgattgctttattg
upper sequence: LOC_Os07g08880.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA04G01140.1 (Glycine max), 5'ss of exon 3
GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATgtgaggaatgctctgattggtgagta----atgaaataattcatttaaattcatctttttcctgaactgcgctggtgtac-attttatggttttatccctcttgc---------------
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GTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTCCAATGTGAGGGCTGCACTGACTGgtaagttgaatatgtaaggtgatattaatctttaatttattccgtgtctgccctgttgttttgttttatgtttctggac-tctggtatgttcagttctgta
upper sequence: LOC_Os07g08880.3 (Oryza sativa), 5'ss of exon 3
lower sequence: PP1S56_182V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATgtgaggaatgct----ctgattggtgagtaatgaaataattcatttaaattcatctttttcctgaactgcgctggtgtacattttatggttttatccctcttgc-----------------
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TTATTGCAAGTGTGAAATGCCATACAATCCTGACGACTTGATGGTTCAATGTGAAATCTGCAAAGACTGgttggtctatattcctcctttctatgcaagtgcagtggattattgta--gaagttgtttttatctcagtattttcctgaatattcgcaaggtgaacttaccc
upper sequence: LOC_Os07g08880.3 (Oryza sativa), 5'ss of exon 3
lower sequence: PP1S384_37V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATgtgaggaatgctctgattggtgagtaatgaaataattcatttaaattcatcttt----ttcctgaactgc--gctggtgtacattt---tatggttttatccctcttgc-----------
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GTATTGCAAGTGTGAGATGCCATACAACCCTGACCACGTGATGCTGGAATGCAACAGTTGCAAAGACTGgtgag-gttgctgtgctctaatattgctcatcagtgaagtgcttgctcagtcagtcagtaaagactcgtgcctcgacctaagtctcgtgcgcttgaagctt
upper sequence: LOC_Os07g08880.3 (Oryza sativa), 5'ss of exon 3
lower sequence: PP1S298_65V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATgtgaggaatgctctgattggtgagtaatgaaataattcatttaaattcatc------tttttcctgaactgcgctggtgtacattttatggttttatccctcttgc--------------
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TTATTGCAAGTGCGAGATGCCTTACAATCCTGATGACTTGATGGTTCAATGTGAAATCTGCAAAGACTGgtaggcc-tatgcttctctgttcaactgcgacaaagtgcatttctttgtatttgcccggatatttgcaagaggacggtttcttgagtgaggagcttgcacc
upper sequence: LOC_Os07g08880.3 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ17782 (Selaginella moellendorffii), 5'ss of exon 3
GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATgtgaggaatgctctgattggtgagtaatgaaataattcatttaaattcatctttttcctgaactgcgctggtgtacattttatggttttatccctcttgc
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GTATTGCAAGTGTGAGATGCCATACAATCCGGACGATTTGATGGTTCAGTGCGAGTCCTGCAAGGATTGgtaagtcctc--ttcatccaaacgagcaaagttttgatgcaaaatac-ctcctttgcgtctccag----------------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|58679044|gb|CK067731.1|CK067731EST: GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAAT GTTTCACCCTTCTTGCATTGGAATGACTATTAAAG
genomic: GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATgtgaggaatg ... tgctttccagGTTTCACCCTTCTTGCATTGGAATGACTATTAAAG
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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATgtgaggaatgctctgattggtgagtaatgaaataattcatttaaattcatctttttcctgaactgcgctggtgtacattttatggttttatccctcttgc
- - - - - - GAGATG