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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATACTCGCCTCGATCGACAAGCTCTCGTTGTTACCTTACCATGGACATGGACACCTCGCACCACTATCCATGGCTCAACTTCTCCCTCGCCCACCACTgttagtactcattctacttcgttgtctgttcatcgatcacatgtgtgtgtgttcttggtcattttttggagtaagtgccgtgcttatgcgttggtatgtgtgtgtgtttgtgcag

Basic information

species Oryza sativa
transcript LOC_Os04g55970.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g55970.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G086573_T01 (Zea mays), 5'ss of exon 1
AAATACTCGCCTCGATCGACAAGCTCTCGTTGTTACCTTAC--CATGGACATGGACACCTCGCACCACTATC---CATGGCTCAACTTCTCCCTCGCCCACCACTgttagtactcattctacttcgttgtctgttcatcgatcacatgtgtgtgtgttcttggtcattttttggagtaagtgccgtgcttatgcgttggtatgtgtgtgtgtttgtgcag--------
     | ||| |   ||| |  | |  | || | |||  ||  | | | |||||||||||||||||||||||   |||||||||||||||||||||||||||||||| ||||| |   |  ||   | | |    |     ||  |  | | | | | | | |     |    | ||      | | |  |||| |   | ||| ||| | |  |  | |        
----GCGCGCGTACGTCG-CCGGTTTCCTTTCTCACCGCACGTCGTCGTCATGGACACCTCGCACCACTATCATCCATGGCTCAACTTCTCCCTCGCCCACCACTgtcagtacccccccccctcgatcgccc---cgcgcgtcgtacctctctttctccctagctccgtgcgtgcgtctcaatc-tccccatgcatgcatgtgtatgtttttccggcccgtcgcgcag
















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|88354039|gb|CI636237.1|CI636237
EST:     GGACACCTCGCACCACTATCCATGGCTCAACTTCTCCCTCGCCCACCANT                         GTGAAATGGAGGAGGAGGAGAGGGGCGCGGCGGCCGAGCTGGCCGCGATAG
genomic: GGACACCTCGCACCACTATCCATGGCTCAACTTCTCCCTCGCCCACCACTgttagtactc ... gtttgtgcagGTGAAATGGAGGAGGAGGAGAGGGGCGCGGCGGCCGAGCTGGCCGCGATAG
EST: gi|88826256|gb|CI776821.1|CI776821
EST:     GGACACCTCGCACCACTATCCATGGCTCAACTTCTCCCTCGCCCACCACT                         GTGAAATGGAGGAGGAGGAGAGGGGCGCGGCGGCCGAGCTGGCCGCGATAG
genomic: GGACACCTCGCACCACTATCCATGGCTCAACTTCTCCCTCGCCCACCACTgttagtactc ... gtttgtgcagGTGAAATGGAGGAGGAGGAGAGGGGCGCGGCGGCCGAGCTGGCCGCGATAG