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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGATGGGTCCCGATTTCCGTGTTCTTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggttttttacagttcatttgatttatacttcagataactattgtatgttttgtaaagacatatatttttcaataaattgctatttcggatagcatgcaatttttcatgtacgacagtcatgatcttttccatcatttacttatttctcatgattgttcttcctttttctaatgcag

Basic information

species Oryza sativa
transcript LOC_Os02g42320.4
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g42320.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM5G824831_T02 (Zea mays), 5'ss of exon 6
TGGGATGGGTCCCGATTTCCGTGTTCTTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtgg--ttttttacagttcatttgatttatacttcagataactattgtatgttttgtaaagacatatatttttcaataaattgctatttcggatagcatgcaatttttcatgtacgacagtcatgatcttttccatcatttacttatttctcatgattgttcttcctttttctaatgcag
|||||||||||| |||||||||||||| ||||| |||||||| || || ||||| || ||||||||||||||||||||    |||||  ||  |   |   ||     |   || ||   || ||| | | |||| || |    || ||  ||   ||     |  | | ||   | | |||                                                                          
TGGGATGGGTCCAGATTTCCGTGTTCTGGTGAGGAAAAGTCGAAAGCAGGCACAACAATATTATCGGTTGTACAAGgtatactttttggcaacttgctaagttagatttctggaaaatatttatatatctggtaa-gagac---ttcttacatgccttagaggtatgaagag---gtacttta-------------------------------------------------------------------------

upper sequence: LOC_Os02g42320.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G115948_T01 (Zea mays), 5'ss of exon 2
TGGGATGGGTCCCGATTTCCGTGTTCTTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtg-gttttttacagttcatttgatttatacttcagataactattgtatgttttgtaaagacatatatttttcaataaattgctatttcggatagcatgcaatttttcatgtacgacagtcatgatcttttccatcatttacttatttctcatgattgttcttcctttttctaatgcag
|||||||||||| |||||||||||||| |||||||||||||| || || ||||| || |||||| |||||||||||||    ||||  ||  |   |   ||     |   || ||   || ||| | | |||| || |    || ||  ||   ||     |  | | ||   | | |||                                                                          
TGGGATGGGTCCAGATTTCCGTGTTCTGGTGAGAAAAAGTCGAAAGCAGGCACAACAATATTATTGGTTGTACAAGgtatacttttggcaacttgctacgttagatttctggaaaatatttatatatctagtaa-gagac---ttcttacatgccttagaggtatgaagag---gtactttaa------------------------------------------------------------------------

upper sequence: LOC_Os02g42320.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM5G850355_T08 (Zea mays), 5'ss of exon 5
TGGGATGGGTCCCGATTTCCGTGTTCTTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtg--gttttttacagttcatttgatttatacttcagataactattgtatgttttgtaaagacatatatttttcaataaattgctatttcggatagcatgcaatttttcatgtacgacagtcatgatcttttccatcatttacttatttctcatgattgttcttcctttttctaatgcag
|||||||||||| ||||| |||||||| |||||||||||||| || || |||||||||||||||||||||||||||||      |||  ||  |  |||     ||   |   | ||   || ||| | |  |||        | || | | | | | |   |     |  | |    | |  |                                                                        
TGGGATGGGTCCAGATTTTCGTGTTCTGGTGAGAAAAAGTCGAAAGCAGGCACAGCAGTATTATCGGTTGTACAAGgtataacatttggcaacttgtttag---atttctggaaaaatatttatatatctgataagag-----acttcttagtcattagaggtacgaaagggtaccttaatcgt------------------------------------------------------------------------

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|58594931|gb|CF993239.1|CF993239
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|58599900|gb|CK010428.1|CK010428
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|58590935|gb|CF989243.1|CF989243
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|88309484|gb|CI655852.1|CI655852
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTG
EST: gi|33680962|gb|CF309201.1|CF309201
EST:     TGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTANTCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTA-TCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|55413225|gb|CV725601.1|CV725601
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|55413193|gb|CV725569.1|CV725569
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG