Sequence
atgc intronic sequence ATGC exonic sequenceCATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttattgcctaagcaagttatatttatatctgactatttagtacagtaaatttgtggtagcctaacttgctcttcttactgccaatattcag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g02670.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G024576_T01 (Zea mays), 5'ss of exon 6
CATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttat---------------------tgcctaagcaagttatatttatatctgactatttagtacagtaaa---tttgtggtagcctaacttgctctt-cttactgcc--aatattcag
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CATTATTGCTACAATATCACCTTCAGTATATTGTTTGGAAGAGACATTGAGCACACTTGATTATGCACACCGTGCAAAAAATATCAAGAACAAACCAGAGgttatatttattatgttttatttgtttggattagtcagtcatactgatgttt-attatttcagacagtacaaactttacaattggttgctgtaggctaacttacttatgtaaaattcag
upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 6
CATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttattgcctaagcaagttatat-ttatatctgactatttagtacagtaaatttgtggtagccta-acttgctcttctta--ctgccaatatt--cag
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CATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACCCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttatagttgctcctttattttgatcaaccttttgctccttttatcaggcagcagagcatatctaatagtttaaagttgcttattttttcag
upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA12G07910.1 (Glycine max), 5'ss of exon 6
CATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttattgcctaag--caagttatatttat--atctgactat-------ttagtacagtaaatttgtggt--agcctaacttgctcttcttactgccaatattcag----
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CATCGTTGCTACGATATCACCTTCTATTCACTGTCTGGAAGAAACTCTAAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgactctcatagttcctactttttttgtcaaccttaccatgctttttttcttatcacagatccgcaatgcaacatatctaatagtttggagt-tcaatactttgttag
upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA13G40580.1 (Glycine max), 5'ss of exon 7
CATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttattgcctaagcaagttatat--ttatatctgactatttagtacagtaaatttgtggtag--cctaacttgctcttcttact--gccaatatt-cag
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CATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACTCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttttagttgcccttttcattttgatcaaccttttgctccttttatcaggcagcagagcatatctaacagtttaaagttggttattttttcag
upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA11G15520.2 (Glycine max), 5'ss of exon 6
CATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttattgcctaag--caagttatatttat--atctgactat---------ttagtacagtaaatttgtggt--agcctaacttgctcttcttactgccaatattcag----
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CATAGTTGCTACGATATCACCTTCTATTCACTGTCTGGAAGAAACTCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgactttcatagttcctactttttttgtcaaccttaccatgctttttttttcttatcacagatttgcagtgcaacatatctaatagtttggagt-tcaatactttgttag
upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
CATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttattgcctaagcaagttatatttatatc-----tgactatttagtacagtaaatttgtggtagcctaacttgctcttct--tactgccaatattcag-----------------
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CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtcatgtgtactaggggccttggttgctatttctttcctcagatttt--gaagttggagtcagtttgaaaatgctgtaatagtttaactttgtttctgtttcag
upper sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 8
lower sequence: PP1S6_143V6.1 (Physcomitrella patens), 5'ss of exon 7
CATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgtta-ttgcctaagcaagttatatttatatctgactatttagtacagtaaatttgtggtagcctaacttgctcttcttactgccaatattcag
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TATAATTGCCACCGTCTCGCCCTCAGTTCCTTGTCTCGAAGAGACACTGAGTACATTGGATTATGCATATCGTGCCAAAAACATCAAGAACAAGCCTGAGgttggtctcttttgtcaaccatgttttcaa-tgttttcaaagttc-gtaggt--gtggaagattgtctaattttttgtattaacttt-ttcagMapped 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|58664623|gb|CK053309.1|CK053309EST: GCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAG GTGAACCAAAGGATGATGACATCTGCTGTGATCAAGGACCTGTACTCT
genomic: GCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttattgcct ... caatattcagGTGAACCAAAGGATGATGAAATCTGCTGTGATCAAGGACCTGTACTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttattgcctaagcaagttatatttatatctgactatttagtacagtaaatttgtggtagcctaacttgctcttcttactgccaatattcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC