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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggtttttaattaatcaaataagaatagagttttccctgtgcaaactgtattgtcattactcagaagtgaaaccgtttgttctgccttcactgattaacag

Basic information

species Oryza sativa
transcript LOC_Os06g49990.2
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49990.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G116434_T01 (Zea mays), 5'ss of exon 13
CCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggtttttaattaatcaaa-taagaatagagttttccctgtgcaaactgtattgtcattactcagaagtgaaaccgtttgttctgccttcactgattaacag
||| ||||| ||||| ||||| ||||||||||| |||||||||||||| ||||||||||| ||||||||||| ||||| ||||||||||| ||||| ||||||| | ||| |  |||| | |   |||     |  ||||||| | |               ||||| |||| | ||| |    |   || |  | | || ||
CCTCGGTGACTGTGGCCGAGCTGCAATCCAGACACAAGGCTCCATGAACAATCCATTTGGATCAACTTTTGTATATGGTTATCAGAATATCGCTTTCGAGgtgggtgttattagatcacactccaaatctgtgtccccctgtgtata---------------tcagatgtgacatcgtgt----tatttttatgggtcaatag

upper sequence: LOC_Os06g49990.2 (Oryza sativa), 5'ss of exon 13
lower sequence: Vv04s0023g02970.t01 (Vitis vinifera), 5'ss of exon 13
CCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggtttttaattaatcaaataagaatagagttttccctgtgcaaactgtattgtcattactcagaagtgaaaccgtt-tgttctgccttcactgattaacag--------------------------------------------------------------------------------
|||||| || ||||| || ||||| || || |||||||| || |  || ||||||||||| || |||||||| ||||| ||||| ||| |||| |||||||||| || |   | |  |   ||     | ||||| | | || |||||   || ||  || ||| |      |||    |||||||  | |  |   ||                                                                                    
CCTTGGGGACTGTGGCCGTGCAGCTATTCAAACGCAAGGTTCTACAAACAATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttattgatgaatactcaatccatgtgttttgctt-tggaaacttctttatc--tattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcag
















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|218783416|gb|GE329468.1|GE329468
EST:     ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
EST: gi|27578134|gb|CB000829.1|CB000829
EST:     GATATCAGAATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: GATATCAGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
EST: gi|88508220|gb|CI435726.1|CI435726
EST:     ATCCATTTGGTTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
EST: gi|33687914|gb|CF316153.1|CF316153
EST:     ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
EST: gi|86834903|gb|CI345987.1|CI345987
EST:     AATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAAATGTTACCCTCTTTCAATCATGAG
genomic: AATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
EST: gi|27577736|gb|CB000431.1|CB000431
EST:     AGAATATTGCTTTTGAG                         GGCATGAAAAATGGATCTTTTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: AGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
EST: gi|88427508|gb|CI548761.1|CI548761
EST:     GATATCAGAATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: GATATCAGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
EST: gi|88469123|gb|CI406394.1|CI406394
EST:     ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
EST: gi|88504066|gb|CI431572.1|CI431572
EST:     TGTCTATGGATATCAGGATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: TGTCTATGGATATCAGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
EST: gi|88249403|gb|CI249252.1|CI249252
EST:     ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
EST: gi|33687915|gb|CF316154.1|CF316154
EST:     ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: ATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG