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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGCCGGGGGGAATGGGGAGCACGGGGCGCGACGCGGAGGTGACCCGCGGCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAGgtactcgccgcccgcgtcgcgtcgcatcgcatcgcatctgcttgctgcccgtggtgactgtactagactagctactactagtagtagtgtactgtacccc...

Basic information

species Oryza sativa
transcript LOC_Os01g67220.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g67220.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G044092_T01 (Zea mays), 5'ss of exon 1
GCCGCCGGGGGGAATGGGGAGCACGGGGCGCGACGCGGAGGTGACCCGCGGCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAGgt-actcgccgcccgcgtcgcgtcgcatcgcatcgcatctgcttgctgcccgtggtgactgtactagactagctactactagtagtagtgtactg--tacccc-
 ||  | || | |||||||||||||||||||||  ||||||||||||||| ||||||||||||||||||||||||||||||||| |||||||| |||||||| | |  ||| ||||  |    | |||| |||| |    |   || |||   | |  | || |  | |  |   |  |  ||  | | |   ||  ||| || 
ACCCGCCGGAGCAATGGGGAGCACGGGGCGCGAGCCGGAGGTGACCCGCGCCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCTACCTCCGCGTACCAGgttagtacccggccgccgccgtccccatctcatcccgcggg---gccgccttcgcttgccgt-cccgtcccgtcccgccgcgtgcttgcgccttgcctacgcct

upper sequence: LOC_Os01g67220.3 (Oryza sativa), 5'ss of exon 1
lower sequence: AC155376.2_FGT005 (Zea mays), 5'ss of exon 1
GCCGCCGGGGGGAATGGGGAGCACGGGGCGCGACGCGGAGGTGACCCGCGGCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAGgtactcgccgcccgcgtcgcgtcgcatcgcatcgcatctgcttgctgcccgtggtgactgtactagac--tagctactactagtagtagtgtactg--tacccc--
             ||||||||||||||||||||  ||||||||||||||| | |||||||||||||||||||||||||||||||||||||||| ||||||||     | |  | || | || |||  ||   | ||||| | | | || || |  | ||   || | |    | | || |  ||    | |   ||  ||| ||  
-------------ATGGGGAGCACGGGGCGCGAGCCGGAGGTGACCCGCGCCAACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCGTACCAGgttggtacggtacccggc-cgccgc--cgt-ccccatct-catcccgcgcg-gccgccttcgcttggcgtccgttcctccgcgtgcctgcgccttgcgtacgcctg

upper sequence: LOC_Os01g67220.3 (Oryza sativa), 5'ss of exon 1
lower sequence: AT5G36890.1 (Arabidopsis thaliana), 5'ss of exon 1
GCCGCCGGGGGGAATGGGGAGCACGGGGCGCGACGCGGAGGTGACCCGCGGCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAGgtactcgccgcccgcgtcgcgtcgcatcgcatcgcatctgctt--gctgcccgtggtgactgtactagactagctactactagtagtagtgtactgtacccc
 | |  |       ||   |     |    |    |||       ||||    |||||||   |  ||||  ||||||||||||||| ||||||||||||||      | | | |   |    |  || ||||   |    |   | | | | |      | ||||   ||   | | |       || |    |||     
ACAGAAGCTTAACTTGCTTAATCTCGCCGTCCCTCCGGTCACCCACCGCTCTAACTTCCCTTCCACCTTCACCTTCGGCGTCGCCACTTCCGCTTACCAGgtctctctctcgctccaagatctgactctcatcttcttcattatagtttctccttcgttttctactcttctgtgtcccaaattctctatttacttgtgtt--

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|88575864|gb|CI670009.1|CI670009
EST:     GCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAG                         ATTGAAGGGGCGAGACGGGAGGGAGGCAAAGGAGATAACATATGGGATGTT
genomic: GCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAGgtactcgccg ... tactgtatagATTGAAGGGGCGAGACGGGAGGGAGGCAAAGGAGATAACATATGGGATGTT
EST: gi|88339606|gb|CI660472.1|CI660472
EST:     GNGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAG                         ATCGAAGGGGCGAGACGGGAGGGAGGCAAAGGACATAACATATGGGATGTT
genomic: GCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAGgtactcgccg ... tactgtatagATTGAAGGGGCGAGACGGGAGGGAGGCAAAGGAGATAACATATGGGATGTT
EST: gi|88356318|gb|CI652755.1|CI652755
EST:     GCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAG                         ATTGAAGGGGCGAGACGGGAGGGAGGCAAAGGAGATAACATATGGGATGTT
genomic: GCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAGgtactcgccg ... tactgtatagATTGAAGGGGCGAGACGGGAGGGAGGCAAAGGAGATAACATATGGGATGTT
EST: gi|572052|gb|D41563.1|D41563
EST:     GCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAG                         ATTGAAGGGGCGAGACGGGAGGGAGGCAAAGGAGATAACATATGGGATGTT
genomic: GCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAGgtactcgccg ... tactgtatagATTGAAGGGGCGAGACGGGAGGGAGGCAAAGGAGATAACATATGGGATGTT
EST: gi|88761211|gb|CI770767.1|CI770767
EST:     GCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAG                         ATTGAAGGGGCGAGACGGGAGGGAGGCAAAGGAGATAACATATGGGATGTT
genomic: GCGACTTCCCCGACGGCTTCGTCTTCGGCGTCGCCACCTCCGCTTACCAGgtactcgccg ... tactgtatagATTGAAGGGGCGAGACGGGAGGGAGGCAAAGGAGATAACATATGGGATGTT