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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgcaatagcttaagctgtttctttatatgattgctcatattcatggtattagccactaatcatgttttcttacgtttcaattgtag

Basic information

species Oryza sativa
transcript LOC_Os03g18310.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G824405_T01 (Zea mays), 5'ss of exon 7
GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgcaat-agcttaagctgtttctttatatga--ttgctcatattcatggtattagccactaatcatgttttcttacgtttcaattgtag
|||||| | |||||||| ||||||||||||||||| ||||| |||||||| || || |||||||||||||||||||||||||||||||||||||||||||||   | | ||||||||||  || | || |  |  ||||   | |  |||||||    | |||||||||||| ||    |||   || |||
GTTGGGCTACCAGCTCGAGGTAAGACCTTTACAGCAGCTAAACTTACAAGATATCTCCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgataatttagcttaagctaattttgtagagaaaattgcatgtgtgtatggtat----cgctaatcatgtttgctat--tttgttttctag

upper sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA02G39390.1 (Glycine max), 5'ss of exon 7
GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgcaatagcttaagctgtttctttata----tgattgctcatattcatggtattagccactaatcatgttttcttacgtttcaattgtag-------------------
||  | ||||||||||| || ||||| |  || || ||||| |||||||| || |||||||||||||||||| | || ||||||||||||||||| |||||       |   |   ||  |||||  ||    | | |  || | |   |  |   || ||  ||  ||||    ||    || ||    |                    
GTGAGTTTGCCAGCTCGAGGCAAGACTTACACTGCAGCTAAACTTACAAGATATCTTCGATGGTTAGGTCATAATACCAAACACTTCAATGTTGGTAAGgttgttctcattcttgactcattcttcttagtaatcagtagtcttgtatctaatggaagacaggaaatatgtcaagtttgaatttaacaaaacttatgtttcaatgttgcag

upper sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA18G06770.1 (Glycine max), 5'ss of exon 9
GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgt-gcgcaatagcttaa-gctgtttctttatatgattgctcatattcatggtattagc-cactaatcatgttttcttacgtttcaattgtag-------------------------------
|| ||  ||||||| || ||||| || || || || ||||| |||||||| || |||||||||||||||||| | || ||||||||||||||||| ||||| |  ||    |||||     ||  | | | | ||     |||| | | |   |||  |   | |     | | | | || | || | |                                 
GTGGGTCTGCCAGCCCGAGGTAAAACTTTCACTGCAGCTAAACTTACAAGATATCTTCGATGGTTAGGTCATAATACCAAACACTTCAATGTTGGGAAGgttgttcacattcttaacatcattcatctgtttaatcaaa-atatacttcgacctagtgcgaaactggaaatatgtcaagtatgaactatgaagattaacccacttatttttggatgtcacag

upper sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA14G37520.3 (Glycine max), 5'ss of exon 7
GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgcaatagcttaagctgtttctttata-tgattgctcatattcatggtattagccactaatcatgt--tttcttacgtttcaattgtag-----------------------
||  | ||||||||||| || ||||| |  || || ||||| || ||||| || |||||||||||||||||| | || ||||||||||||||||| |||||     | |   |   ||  |||||  || | ||   ||||  |  | ||||    |   |  || |   | | | | |||| ||||  |                        
GTGAGTTTGCCAGCTCGAGGCAAGACTTACACTGCAGCTAAACTAACAAGATATCTTCGATGGTTAGGTCATAATACCAAACACTTCAATGTTGGTAAGgttgttcacattcttgactcattcttcttagtaatcaatcat-cttgttgtatctaacgaaaggcaggaaatatgtcaagtttgaatttaacacacttatgtttcaatgttgcag

upper sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA11G27410.1 (Glycine max), 5'ss of exon 13
GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgcaatagcttaagctgtttctttatatgattgctca-tattcatggtattagc-cactaatcatgttttcttacgtttcaattgtag-------------------------------
|| ||  |||||||  | ||||| || || || || ||||| |||||||| || ||||  |||||||||||| | || ||||||||||||||||| |||||     | |   | | |   |  || || || ||  ||| ||| | | |   |||  ||  | |     | | | | || | || | |                                 
GTGGGTCTGCCAGCCAGAGGTAAAACTTTCACTGCAGCTAAACTTACAAGATATCTTCATTGGTTAGGTCATAATACCAAACACTTCAATGTTGGGAAGgttgtttacattcttaaca--tcattcatctgtttaatcaatatacttcgacctagtgcaaaactggaaatatgtcaagtatgaactatgaagattaacccacttatttttggatgtcacag

upper sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA11G27870.1 (Glycine max), 5'ss of exon 8
GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgcaatagcttaagctgtttctttatatgattgctca-tattcatggtattagc-cactaatcatgttttcttacgtttcaattgtag-------------------------------
|| ||  |||||||  | ||||| || || || || ||||| |||||||| || ||||| |||||||||||| | || ||||||||||||||||| |||||     | |   | | |   |  || || || ||  ||| ||| | | |   |||  ||  | |     | | | | || | || | |                                 
GTGGGTCTGCCAGCCAGAGGTAAAACTTTCACTGCAGCTAAACTTACAAGATATCTTCGTTGGTTAGGTCATAATACCAAACACTTCAATGTTGGGAAGgttgtttacattcttaaca--tcattcatctgtttaatcaatatactttgacctagtgcaaaactggaaatatgtcaagtatgaactatgaagattaacccacttatttttggatgtcacag

upper sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 5'ss of exon 7
GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgcaatagcttaagctgtttctttatatgattgctcatattcatggtattagccactaatcatgttttcttacgtttcaattgtag
||||| ||||||||||| ||||| || ||||| || ||||| |||||||| || ||||| ||||| |||||||| || ||||||||||||||||||||||||    |||  || |   |||  |    || |  |||| || |||| | | |    |  | | || |    ||  |||  ||  |   
GTTGGCTTGCCAGCTCGAGGTAAAACTTTTACTGCAGCTAAACTTACAAGATATCTTCGCTGGTTGGGTCATGAGACCAAACACTTCAATGTTGGAAAGgtgatttatatttttaaa-gttattc---atcacagctc-taatcattgaagtgaggaagattgatatgacttttggttgtaacag---

upper sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S235_92V6.1 (Physcomitrella patens), 5'ss of exon 6
GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgcaatagcttaagctgtttctttatatgattgctcatattcatggtattagccact-----------aatcatgttttcttacgtttcaat-tgtag-
|||||  | || ||||| || ||||| |||||||| |||||||| || || || ||  | ||| | || ||||| || |||||||||||||||||||||||  ||  |||  |   |  ||  |  | |       |  ||||    |  ||| | | |           | ||||  | |  |  |||    | | ||| 
GTTGGCCTACCTGCTCGAGGGAAGACTTTTACAGCAGCTAAGCTGACGAGATATCTCAGGTGGCTTGGCCATGATACCAAACACTTCAATGTTGGAAAGgtaagct-tagtctgctc-attagtagacagtgaaagtagtattttgagctttaactattgtgagggggacagtcattgtctacttggttctggtgtttagt

upper sequence: LOC_Os03g18310.1 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S215_89V6.1 (Physcomitrella patens), 5'ss of exon 8
GTTGGGTTGCCAGCTCGTGGTAAGACCTTTACAGCGGCTAAGCTTACAAGGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgc-----aatagctta------agctg-------tttctttatatgattgctcatattcatggtattagccactaatcatgttttcttacgtttcaattgtag--------------------------------------------------------------------------------------
|||||||| || |||||||| ||||| || || || ||||| || || || ||  | || |||||||||||||| || || |||||||||||||| |||||  |       | | |||       |||||       | |  | |  | ||| ||  | ||  | | || |       || ||  | | ||  ||  | | | |                                                                                        
GTTGGGTTACCGGCTCGTGGAAAGACATTCACTGCAGCTAAACTGACCAGATATTTGCGGTGGTTAGGTCATGACACCAAGCACTTCAATGTTGGCAAGgtatgtttttagaaaactttgtacgcagctggtgtcaatcttctcaacttatttcttgttttggttgcatgattttgggatgattatattttgtgtacccaatatctaaggtgctctttcaggttttagccttagagtgcacactttttgcagtggagtattttgatgcgattgtgcttttgatgtttcacag

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|58689570|gb|CK078257.1|CK078257
EST:     GGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAG                         TACCGCCGACTCAAGCATGGCATTAATCAG
genomic: GGTACCTTCGATGGTTAGGTCATGAAACAAAACACTTCAATGTTGGAAAGgtgcgcaata ... tcaattgtagTACCGCCGACTCAAGCATGGCATTAATCAG