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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAGgtaagagtaagacgtatgcacaacctgcatgtgtcatatccatcagtcaaatagttgaaatatattatttgcctctgctttggcatgaattatagtgagc...

Basic information

species Oryza sativa
transcript LOC_Os07g19560.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g19560.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AC185415.3_FGT005 (Zea mays), 5'ss of exon 5
GTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAGgtaagagtaagacgtatgcacaacctgcatgtgtcatatccatcagtcaaatagttgaaatatattatttgcctc-tgctttggcatg-aattatagtgagc
||| |||||||| || ||||| ||||| |  ||||||||||| ||||||||| ||||||| |||  ||||||||||||||| ||| |||   ||       |||| |  ||||||||     |     |  || ||  || ||    || || |   |  | || | ||| | ||  ||| ||   
GTGCGGCAACATCAACTGGGCTAAGCGTACCAAATGTAATATATGTAACACCTCCAAGCCTGGTACCAATGAAGGTGgtgtgaggcaagtacaatg-----gcactatttgcatgtggttggtttg--aaacatattatttaagccgataatataaattgtactctagcaggtaaacatattgt--

upper sequence: LOC_Os07g19560.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AC233865.1_FGT006 (Zea mays), 5'ss of exon 5
GTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAGgtaagagtaaga----cgtatgcaca-acctgcatgtgtcatatccatcagtcaaatag-ttgaaatatattatttgcctctgctttggcatgaattatagtgagc
|||||||||||| || ||||| |||||||  ||||||||||| ||||||||| ||||||| |||  ||||||||||||||| |||||||   |||       | ||||      ||    | | || |         | |||  ||| | | ||| |  |  | |     |    | |||||||      
GTGTGGCAACATCAACTGGGCTAAGCGGACCAAATGTAATATATGTAACACCTCCAAGCCTGGTACCAATGAAGGTGGTGTGAGgtaagtacaagggcactatttgcatgtggttggccatattattttagatgacaatataaattgtactctatcaggtatcccaaacatcttgtaaattata------

upper sequence: LOC_Os07g19560.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA12G03260.1 (Glycine max), 5'ss of exon 4
GTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAGgtaagagtaagacgtatgcacaacctgcatgtgtcatatccatcagtcaaatagttgaaatatattatttgcctctgctttggcatgaattatagtgagc--
|||||| || || ||||||||||||||||  ||||| |||||||| ||||| |  ||||| || || ||||| |||||||| |||||   |   |   | |   |    |  ||   |  ||    | ||| || ||  |          |    || ||| |          | ||  |||    
GTGTGGGAATATCAATTGGGCAAAGCGGACTAAATGCAATATCTGCAACACAAATAAGCCTGGGCATAATGAGGGTGGTGTAAGgtattggattggattctattct-tttttatacattctagt-gttagtgaagtacatagtggcacccagccacccctgatgaaagcctcttcatgatgactat

upper sequence: LOC_Os07g19560.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT1G50300.1 (Arabidopsis thaliana), 5'ss of exon 5
GTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAGgtaagagt-aagacgtatgcacaacctgcatgtgtcatatccatcagtcaaat---agttgaaatatattatttgcctctgctttggcatgaattatagtgagc
|||||||||  | || ||||| || ||  | |||||||||||||| |||||||  || || ||||| |||||||||||||| ||||| || | ||  |   ||   |   ||| | |||  | |      |  |  |   || |||   || |   ||     || |||  ||   | | |||     
GTGTGGCAATGTCAACTGGGCGAAACGTCTAAAATGTAATATCTGCAACACCAATAAACCTGGTCAGAATGAAGGTGGTGTGAGgtatgactcaaagccagtgataagattgcctttgtattgttatcttgcaatgttcgagctgagg-atttggattataaatgattttacagtgaatgtagga---

upper sequence: LOC_Os07g19560.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv01s0010g01410.t01 (Vitis vinifera), 5'ss of exon 4
GTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAGgtaagagtaagacgtatgcacaacctgcatgtgtcatatccatcagtcaaatagttgaaatatattatttgcctctgct--ttggcatgaattatagtgagc
|||||||||||| || |||||||||||||  || || ||||| || |||||||  ||||| || || |||||||||||||| ||||| |  | |    ||||    |  || |||  |  |    ||   | |  | ||  | || |   |    |   |  |   || ||  |||  |  |    
GTGTGGCAACATTAACTGGGCAAAGCGGACAAAGTGCAATATATGCAACACCAATAAGCCTGGCCATAATGAAGGTGGTGTGAGgtagggatgatggttatgttttaattggatggatgttggttattttttatct-gtgcatatgtcagaaccacaatttttagctgacaataatcttcctttc-

upper sequence: LOC_Os07g19560.2 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S148_65V6.2 (Physcomitrella patens), 5'ss of exon 4
GTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAGgtaagagtaagacgtatgc-acaacctgcatgt-gtcatatccatcagtcaaatagttgaaatatattatttgcctctgctttggcatgaattatagtgagc--------------------------------------------------
||||||||||||||||||||||||||| |  |||||||| ||||| |||||  |||| || |||  ||||||||| ||||  ||||            | |||  || | |  || | |||| || ||  ||     || ||  ||  |        | ||    ||    |||| | | ||                                                      
GTGTGGCAACATAAATTGGGCAAAGCGCACAAAATGTAACATCTGCAACACTGCCAAACCTGGTTTCAATGAAGGCGGTGCCAGgtgttttgtcttgatgtgctgcatcttatatctcgtcaaattcagtaggtttgtaatttcaagcttcggaaaacttcactattatggtgaaatcttgtcctgacataatggccctttcttgctattttcctctttctgtttttgctacacag

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|29637898|gb|CB642907.1|CB642907
EST:     TGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAG                         AGGTGGCCGGGGTGGTGGGTATAAAGAACTTGATGAAGAAGAACTAGAGGA
genomic: TGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAGgtaagagtaa ... ctctttgcagAGGTGGCCGGGGTGGTGGGTATAAAGAACTTGATGAAGAAGAACTAGAGGA