Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACGTCGCCTCCGGTGGGCCCGCCTTGGAGGCCGCCGTGCAGAGCGCCTGGGACGCCTTCGGCCGCATCGACGTCCTCATCAACAACGCTGGCCTTCGAGgtataatctgatttgctctatcaagtaggagtattcaattgtgagcatttttttctagtgccaatcaaatcctccatcctactcaccacgggcgctgaat...

Basic information

species Oryza sativa
transcript LOC_Os08g39960.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g39960.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G115442_T02 (Zea mays), 5'ss of exon 1
GACGTCGCCTCCGGTGGGCCCGCCTTGGAGGCCGCCGTGCAGAGCGCCTGGGACGCCTTCGGCCGCATCGACGTCCTCATCAACAACGCTGGCCTTCGAGgtataatctgatttgctctatc-aagtaggagtattcaattgtgagcatttt----tttctagtgccaatcaaatcctccatcctactcaccacgggcgctgaat------------------------------------------------------------------------
||||||||| |||||||  | ||| ||||||| || |||||||  |||||||||||||| ||||| ||||||| | |  |||||||||| ||| | |||||||  |    ||   |   |||  ||   || |||     | |  |||| |      | | ||    ||  |    |   | |  | | | | | | | |    |                                                                        
GACGTCGCCGCCGGTGGTTCGGCCCTGGAGGCGGCGGTGCAGAAGGCCTGGGACGCCTTTGGCCGTATCGACGCCTTGGTCAACAACGCCGGCATACGAGgtacgact--atccacgaaatctgagctcgaatatcttcgtttaggcatctagtaactgccagatggaaatatgcaccgaaccaaatttagcccagtccccagttcgttagcgaaccaagaacgtatcggctggaacgtatggtaatatctgtgtctcttgttttattacgcttcag
















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|88237303|gb|CI237152.1|CI237152
EST:     ACGTCCTCATCAACAACGCTGGCCTTCGAG                         GAGGTGTGCACTCACCATTGGATTGGCCTGAGGATGAATGGGAGACACTTA
genomic: ACGTCCTCATCAACAACGCTGGCCTTCGAGgtataatctg ... tacacttcagGAGGTGTGCACTCACCATTGGATTGGCCTGAGGATGAATGGGAGACACTTA
EST: gi|66919043|gb|CX105891.1|CX105891
EST:     GGACGCCTTCGCCCGCATCGACGTCCTCATCAACAACGCTGGCCTTCGAG                         GAGGTGTGCACTCACCATTGGATTGGCCTGAGGATGAATGGGAGACACTTA
genomic: GGACGCCTTCGGCCGCATCGACGTCCTCATCAACAACGCTGGCCTTCGAGgtataatctg ... tacacttcagGAGGTGTGCACTCACCATTGGATTGGCCTGAGGATGAATGGGAGACACTTA