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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTTATGATCTGGTTGCTAGCCATTATCTACTTTATATCTGGTGTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAGgttgtgaatatacttgtgtttttgttatttctgcacactatttcttcttatatttgacatagtgtattgttacaatgtatgttgcag

Basic information

species Oryza sativa
transcript LOC_Os01g57220.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g57220.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G169773_T02 (Zea mays), 5'ss of exon 7
GTGTTATGATCTGGTTGCTAGCCATTATCTACTTTATATCTGGTGTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAGgttgtgaatatacttgtgtttttgttatttctgcacactatt--------tcttcttatatttgacatagtgtattgttacaatgtatgttgcag
|||| ||||||||||||||||| || |||||||| || |||||||| ||||| ||||||||| | ||||||||||| |||||||||||||||||||||||  |||  || || | |   ||||  |||||| |            | || |  |||| ||||  ||| || ||  ||||| | || |||
GTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTGGGGCCTATGTGCTTTGGTATCGCCCGCTTTACAATGCGATGAGgttgtgtgtatgtttctgctgtgtctattcatgcacattgccacattgtaccctcctccatttcacattatgt-ttatttaaatgtgtattacag

upper sequence: LOC_Os01g57220.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA12G11820.1 (Glycine max), 5'ss of exon 8
GTGTTATGATCTGGTTGCTAGCCATTATCTACTTTATATCTGGTGTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAGgttgtg--------aatatacttgtgtttttgttatttctgcacactatttcttcttatatttgacatagtgtattgttacaatgtatgttgcag-----
||   |  |||||||| || || |||||||| ||||| |||||||  || ||| |||||||||| ||||||||||| |||||   ||| ||||||| |||         || || |    |||||||  |||         || ||| ||||    |     ||  ||||  |  ||   |    | |      
GTCCAACCATCTGGTTTCTTGCAATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcaatcagatttaatgcaatttttgtagtttagaacagggatatctgcttaagagtttttcagcctatttgtttaactgaaaaggaaaaaaaa

upper sequence: LOC_Os01g57220.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA06G45160.1 (Glycine max), 5'ss of exon 8
GTGTTATGATCTGGTTGCTAGCCATTATCTACTTTATATCTGGTGTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAGgttgtg--------aatatacttgtgtttttgttatttctgcacactatttcttcttatatttgacatagtgtatt-gttacaatgtatgttgcag----
||   |  |||||||| || || |||||||| ||||| |||||||  || ||| |||||||||| ||||||||||| |||||   ||| ||||||| |||         || || |    ||||||  ||||         || |||  | |    |   | ||   ||| |||| | || |      ||    
GTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcgatcagatttaatgcaatttttgcaatttagaatagggatatctgttcaagagttttacagccgatttgttaaactgaaaagaaaagaaaa

upper sequence: LOC_Os01g57220.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G11180.2 (Arabidopsis thaliana), 5'ss of exon 7
GTGTTATGATCTGGTTGCTAGCCATTATCTACTTTATATCTGGTGTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAGgttgtgaatatacttgtgtttttgttatttctgcacactat----ttcttcttatatttgacatagtgtattgttacaatgtatgttgcag--------------------
| || |  || ||| | || ||| |||| ||||| ||||| ||||| || |||| |||||||||||||||||| || || |||  |||  | ||||| | | | | | |   |      || || ||   |  |     ||| |  ||| |||    |    |||    | | |  ||||| |                      
GAGTAACAATTTGGCTTCTCGCCGTTATTTACTTCATATCGGGTGTTCCAGGAGGCTATGTGTTATGGTATCGGCCTCTCTACCGTGCCTTCAGgttcttatttttcatccctagacactaattttgtgtaggaaagtgttcgtagtatttttatttttccatatatccatattcaatgtttctctttgtgttgaattcctgcag

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|25803449|gb|CA759418.1|CA759418
EST:     ATCGCCCCCTTTACAATGCGATGAG                         GACTGAGAGTGCTTTGAAGTTNGGATGGTTTTTCCTGTTTTGCTTG
genomic: ATCGCCCCCTTTACAATGCGATGAGgttgtgaata ... tatgttgcagGACTGAGAGTGCTTTGAAGTTTGGATGGTTTTTCCTGTTTTACTTG
EST: gi|11370676|gb|AU164981.1|AU164981
EST:     GTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAG                         GACTGAGAGTGCTTTGAAGTTTGGATGGTTTTTCCTGTTTTACTTG
genomic: GTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAGgttgtgaata ... tatgttgcagGACTGAGAGTGCTTTGAAGTTTGGATGGTTTTTCCTGTTTTACTTG
EST: gi|86889655|gb|CI299853.1|CI299853
EST:     ATCGCCCCCTTTACAATGCGATGAG                         GACTGAGAGTGCTTTGAAGTTTGGATGGTTTTTCCTGTTTTACTTG
genomic: ATCGCCCCCTTTACAATGCGATGAGgttgtgaata ... tatgttgcagGACTGAGAGTGCTTTGAAGTTTGGATGGTTTTTCCTGTTTTACTTG
EST: gi|3760903|gb|C98157.1|C98157
EST:     GTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAG                         GACTGAGAGTGCTTTGAAGTTTGGATGGTTTTTCCTGTTTTACTTG
genomic: GTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAGgttgtgaata ... tatgttgcagGACTGAGAGTGCTTTGAAGTTTGGATGGTTTTTCCTGTTTTACTTG
EST: gi|33683758|gb|CF311997.1|CF311997
EST:     ACAATGCGATGAG                         GACTGAGAGTGCTTTGAAGTTTGGATGGTTTTTCCTGTTTTACTTG
genomic: ACAATGCGATGAGgttgtgaata ... tatgttgcagGACTGAGAGTGCTTTGAAGTTTGGATGGTTTTTCCTGTTTTACTTG