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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_Os02g42320.1
intron # 4
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|27554138|gb|CA998038.1|CA998038
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|27576119|gb|CA998813.1|CA998813
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|86493119|gb|CI135752.1|CI135752
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|88852675|gb|CI008868.1|CI008868
EST:     AGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: AGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|88236034|gb|CI235236.1|CI235236
EST:     GAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: GAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|86494880|gb|CI137513.1|CI137513
EST:     AACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: AACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|29613823|gb|CB618836.1|CB618836
EST:     TATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|396941624|gb|HO188281.1|HO188281
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|25797837|gb|CA753798.1|CA753798
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
EST: gi|56550165|gb|CX056269.1|CX056269
EST:     TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAG                         GAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG
genomic: TTGTGAGAAAAAGTCGGAAACAAGCACAGCAGTATTATCGGTTGTACAAGgtggtttttt ... tctaatgcagGAAACTATCCCTGTTACTCAGCTTGTCCGAGAAACTGCTGCTGTTATGCAG