Sequence
atgc intronic sequence ATGC exonic sequencegtgagtaaacttaaaattttctattcattgattaaaatataatatatctatctgatttttcaactgcccaatactacttttgatattgaattatcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
Basic information
species | Oryza sativa |
transcript | LOC_Os05g02670.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g02670.3 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G024576_T01 (Zea mays), 3'ss of exon 4
gtgagtaaacttaaaattttctattcattgattaaaatat--aatatatctatctgatttttcaactgcccaatactacttttgatattgaattatcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
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gtgagttacttctaaatgtccaatt-atagataaaaaaatcaaatgcttctctctgatctttcaaatttaataaagcacttgtaacatcgaatctacattgcagGGCAGAGCGAGAGAGGCTGGAGAGATCAACAAGAGTTTGCTCACGCTTGGTCGTGTTATTAATGCTCTAGTAGAGCACTCTGGACATGTACCATACAG
upper sequence: LOC_Os05g02670.3 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA13G40580.1 (Glycine max), 3'ss of exon 5
gtgagtaaacttaaaattttctattcattgattaaaatataatatatctatctgatttttca-actgcccaata-ctacttttgatattgaattatcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
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----tttcactgctggcattatctctgcctagttctgtggcatttgtctggggaaaaaaaaacatagctttatagcttcactaagaagaagaaaatacttgcagGGTAGAGCAAGGGAGGCTGGGGAGATAAACAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCGCTAGTTGAGCACTCAGGTCATGTTCCATATAG
upper sequence: LOC_Os05g02670.3 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA11G15520.2 (Glycine max), 3'ss of exon 4
gtgagtaaacttaaaattttctattcattgattaaaatataatatatctatctgatttttcaactgcccaatactacttttgatattgaattatca--------ttgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
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--------gcattatctttatctcactctgattattcttcagtatttgtctgaaaagactaaaatgtt--atagcttttttgagattcatttgtaagaaaatgctcgcagGGTAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGTCGAGTGATTAATGCTCTAGTTGATCATTCAGGTCATGTGCCTTATAG
upper sequence: LOC_Os05g02670.3 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA15G04830.1 (Glycine max), 3'ss of exon 4
gtgagtaaacttaaaattttcta-ttcattgattaaaatataatatatctatc-tgatttttcaactgcccaatactacttttgatattgaattatcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
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-ttgctggcatcatctctgcctagttctgtcacatttgtctggaaaaaaaatcatagctttagagcttcactaagaagaagaaaatact---tggcacttgcagGGTAGAGCAAGGGAGGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCTCTAGTTGAGCACTCAGGTCATGTTCCATATAG
upper sequence: LOC_Os05g02670.3 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA12G07910.1 (Glycine max), 3'ss of exon 4
gtgagtaaacttaaaatt-ttctattcattgattaaaatataatatatctatctga--tttttcaactgcccaatactacttttgatattgaattatcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
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--gcattatctttatctcactctgattattcttcagtatttgtctgaaaagactaaaatgttatagcttttttgagcttcatttg---taagaaaatgctcgcagGGTAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGTCGAGTGATTAATGCTTTAGTTGATCATTCAGGTCATGTGCCATATAG
upper sequence: LOC_Os05g02670.3 (Oryza sativa), 3'ss of exon 5
lower sequence: AT2G28620.1 (Arabidopsis thaliana), 3'ss of exon 4
----gtgagtaaacttaaaatttt--ctattcattgattaaaatataatatatctatctgatttttcaactgcccaatactacttttgatattgaattatcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
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gtacctaaaacagtcaggaaccatgattttttattgacagaataatagtgtcttaccttgatgattta-ctaaacaatataagagtcactatt---------ttgcagGGTAGAGCCAGGGAAGCTGGTGAGATCAACAAAAGTTTGCTCACACTTGGACGTGTCATAAATGCTTTGGTTGAACACTCTGGTCACATTCCATATAG
upper sequence: LOC_Os05g02670.3 (Oryza sativa), 3'ss of exon 5
lower sequence: AT3G45850.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgagtaaacttaaaattttctattcattgattaaaatataatatatctatctgatttttcaactgcccaatactacttttgatattgaattatcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
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----gtatacttt--atcttattatcatcgtctctgaggtca-gtgtcttccaggcagtcatggaagctagtgctaagcattttgac-aactgttattgcagGGACGAGCCAGAGAAGCTGGAGAGATCAACAAGAGTTTACTTACTCTTGGCCGTGTCATTAACGCGCTTGTGGAGCACTCTGGTCATATTCCTTACAG
upper sequence: LOC_Os05g02670.3 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 5
-----gtgagtaaacttaaaattttctattcattgattaaaatataatatatctatctgatttttcaactgcccaatactacttttgatattgaattatcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
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acaacaaaagcatatgcataatatgaagtt-gtgtgttaggcaatgaaaagttcatttatcttcacataaa---agtttgactgcaaaaattcaatgc---tttcagGGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGMapped 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: TAGTCGATCTAGCTGGTTCAGAAAATATCTCACGGTCAGGTGCTAGAGAT GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGT
genomic: TAGTCGATCTAGCTGGTTCAGAAAATATCTCACGGTCAGGTGCTAGAGATgtgagtaaac ... atcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctatctgatttttcaactgcccaatactacttttgatattgaattatcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
ttttgat putative branch site (score: 4)
ttttgatattgaatta TA-rich tract