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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCCGGCAGGTGGAGACCCACCACTTCGTCTCCCGCCTCAACCAGGACGTCCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgccgcgcgcgcgcgacacgctacatccccgcatgattacagctagctgctaacgagttcgtgtgtatgtgtacatgtgtgtgcag

Basic information

species Oryza sativa
transcript LOC_Os01g54520.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g54520.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G043521_T01 (Zea mays), 5'ss of exon 1
CGCCGGCAGGTGGAGACCCACCACTTCGTCTCCCGCCTCAACCAGGACGTCCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcg-acgccgcgcgcgcgcgacacgcta-catccccgcatgattaca-gctagctgctaacgagttcgtgtg----tatgtgtacatgtgtgtgcag----------------
   |||||||||||||| ||||||| |||||||||||||||||||||| ||||||||||||||||||| ||| ||||| |     |||| || ||||||||||||  | ||| || | | |  |   ||  ||||  |   |||||    |  |  |||| |||     |   |    |   | ||||||  | |                    
AAGCGGCAGGTGGAGACGCACCACTACGTCTCCCGCCTCAACCAGGACTTCCTCCAGTGCGCCGTCTATGACTCCGACAAAGCCGACGCGCGTCTCATCGgtgcgtgcaccgtgcac-cccatcttactgtcatcttcaattgattctttggcatgtgctcacgcccaagaaggacactgcatctacatggatcttttcttttaactgcatgcag

upper sequence: LOC_Os01g54520.2 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv10s0003g02040.t01 (Vitis vinifera), 5'ss of exon 1
CGCCGGCAGGTGGAGACCCACCACTTCGTCTCCCGCCTCAACCAGGACGTCCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgccgcgcgcgcgcgacacgctacatccccgcatgattacagctagctgctaacgagttcg-tgtg-tatgtgtacatgtgtgtgcag
   || ||| | ||||| ||||||| | || | || |||||||||||| |||||||||||||||| || ||  ||||| ||    |||| |  || ||||||   || || | | |   |   |  ||   |   |   |||||  || ||   | |||    | |   ||| | |  | |  || ||||||||
ACTCGCCAGATCGAGACTCACCACTACATCACTCGTCTCAACCAGGACTTCCTCCAGTGCGCCGTTTATGATTCCGACAACTCCGACGCTCATCTTATCGgtaaaacacctctctctttctgta-actggttgttccggtgatttaaggta-tagttaaaacctccaacgtggtcttggcaattgggtgtgcag
















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|88304825|gb|CI671070.1|CI671070
EST:     CCTCCAGTGCGCCGTCTACGACGCCGANGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGG
EST: gi|218488839|gb|FG965943.1|FG965943
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGACTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218488131|gb|FG951351.1|FG951351
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218486355|gb|FG966145.1|FG966145
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACCAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGATG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218482892|gb|FG964851.1|FG964851
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218494988|gb|FG969744.1|FG969744
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218497590|gb|FG963948.1|FG963948
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218488590|gb|FG967101.1|FG967101
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218502724|gb|FG947962.1|FG947962
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218484284|gb|FG946807.1|FG946807
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218482695|gb|FG967370.1|FG967370
EST:     ACTCCAGTGCGCCGTCTACGACGCCGACGACAAGCAGGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGC
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGC
EST: gi|218481032|gb|FG967550.1|FG967550
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218483642|gb|FG955546.1|FG955546
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218487782|gb|FG970667.1|FG970667
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218492101|gb|FG950662.1|FG950662
EST:     TGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: TGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218495064|gb|FG965798.1|FG965798
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218490274|gb|FG964409.1|FG964409
EST:     CCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218502758|gb|FG964165.1|FG964165
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
EST: gi|218482805|gb|FG967504.1|FG967504
EST:     CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCG                         GAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG
genomic: CCTCCAGTGCGCCGTCTACGACGCCGACGACAAGCACGCCCGCCTCATCGgtgcgacgcc ... gtgtgtgcagGAGTGGAGTATATCGTGTCGCGGAAGATCTTCGACTCGCTGCCGGCGGAGG