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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTGAAATAGCAATAACTAAGTTGCTACTGAAGTCATATTACAATATAGTGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTGgtccgtgatcgttgtctcacttttctcattattactcgctttgcataggatggtgatttatttggcacattatttcgattataactaatgtttctggaca...

Basic information

species Oryza sativa
transcript LOC_Os01g69130.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G180335_T03 (Zea mays), 5'ss of exon 9
GCTTGAAATAGCAATAACTAAGTTGCTACTGAAGTCATATTACAATATAGTGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTGgtccgtgatcgttgtctcacttttctcattat-tactcgctttgcataggatggtgatttatttggcacattatttcg-attataa-ctaatgtttctggaca
 |||||||||||||| || ||||||||| ||||||||||||||||||| ||  |||||||||| ||||||||| | ||||| ||||| |||||||| |||||  | ||   |  | ||   ||   | |||| | | |  |     |  |   |  ||   | ||  || ||   | | ||  ||  || |  | || |    
ACTTGAAATAGCAATTACAAAGTTGCTATTGAAGTCATATTACAATATTGTCAGGAAAAATGTGGAGGACTTCATACCAAAAGCAATTATGCATTTCCTGgtatgagagattcttatccaattgtcctttatgtgcgcattccatctctgtatgcaatccttgtgctacttttaatggcatggtaggcttagatgtcagt---

upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G129155_T01 (Zea mays), 5'ss of exon 17
GCTTGAAATAGCAATAACTAAGTTGCTACTGAAGTCATATTACAATATAGTGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTGgtccgtgatcgttgtctcacttttctcattattactcgctttgcataggatggtgatttatttggcacattatttcgattataactaatgtttctggaca-
|||||||||||| || || ||||||||| ||||||||||||||||||| ||  |||||||||| ||||||||  | ||||| ||| | ||||||||  ||||  |||||   | ||  | | | ||  |   ||  |  | |   |   ||  | | |    ||| |   | |     |     |||| | |      |  
GCTTGAAATAGCGATCACAAAGTTGCTATTGAAGTCATATTACAATATTGTCAGGAAAAATGTGGAGGACTTAATACCAAAAGCAGTTATGCATTTCTTGgtatgtgattcatatccgattgtcctt-tcggtatgcaatctttgtgctatttttaatggcatggtaggctttagatgtcggtgctaaagctaaacagcta

upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 17
lower sequence: AT2G14120.3 (Arabidopsis thaliana), 5'ss of exon 18
GCTTGAAATAGCAATAACTAAGTTGCTACTGAAGTCATATTACAATATAGTGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTGgtccgtgatc-gttgtctcacttttctcattattactcgctttgcataggatggtgatttatttggcacattatt--tcgattataactaatgtttctggaca--------------------------------
  |||| || |  ||||| ||| |  || |||| || || ||  | || ||  |||| ||||| |||||||| || ||||| ||||||||||||||||||||  ||| ||   | |   | | |||| ||| |  || ||    |||   ||||| ||| ||    |  | | |   |||||| |   | | |   ||    |                                
AGTTGAGATTGAGATAACAAAGCTATTATTGAAATCCTACTATGACATTGTAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTGgttagtgttccactcttctagtcttctgattgt--ctagccaaacatcttatggtcattgatgacacttagtgtgggtcgattctttgtgaggggactaataactctattccatataattgtgaataaaacacag

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|325494121|gb|JG458645.1|JG458645
EST:     TGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTG                         GTTAACCACACAAAACGGGGGCTGCATAATTACCTTATAACTAAGCTTTAT
genomic: TGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTGgtccgtgatc ... tcgcttgcagGTTAACCACACAAAACGGGAGCTGCATAATTACCTTATAACTAAGCTTTAT
EST: gi|88200886|gb|CI198738.1|CI198738
EST:     TGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTG                         GTTAACCACACAAAACGGGAGCTGCATAATTACCTTATAACTAAGCTTTAT
genomic: TGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTGgtccgtgatc ... tcgcttgcagGTTAACCACACAAAACGGGAGCTGCATAATTACCTTATAACTAAGCTTTAT
EST: gi|25806989|gb|CA762950.1|CA762950
EST:     TGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATNTTCTG                         GTTAACCACACAAAACGGGAGCTGCATAATTACCTTATAACTAAGCTTTAT
genomic: TGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTGgtccgtgatc ... tcgcttgcagGTTAACCACACAAAACGGGAGCTGCATAATTACCTTATAACTAAGCTTTAT
EST: gi|29625093|gb|CB630104.1|CB630104
EST:     TGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTG                         GTTAACCACACAAAACGGGAGCTGCATAATTACCTTATAACTAAGCTTTAT
genomic: TGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTGgtccgtgatc ... tcgcttgcagGTTAACCACACAAAACGGGAGCTGCATAATTACCTTATAACTAAGCTTTAT
EST: gi|58683601|gb|CK072288.1|CK072288
EST:     TGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTG                         GTTAACCACACAAAACGGGAGCTGCATAATTACCTTATAACTAAGCTTTAT
genomic: TGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTGgtccgtgatc ... tcgcttgcagGTTAACCACACAAAACGGGAGCTGCATAATTACCTTATAACTAAGCTTTAT