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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGAATATGTGCCAGAAACTGTTCATCGTGTTATTAGACATTACAATAAGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgcaggcgccttacaacacaactatagctatgcactattagttttgataatgattttaactgaaaactgttcattgtcatttctgttctttcag

Basic information

species Oryza sativa
transcript LOC_Os01g19150.5
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g19150.4 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G075992_T01 (Zea mays), 5'ss of exon 1
TCTTGAATATGTGCCAGAAACTGTTCATCGTGTTATTAGACATTACAATAAGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggt---------tgcaggcgccttacaacacaactatagctatgcactatta-gttttgataatgattttaactgaaaactgttcattgtcattt--ctgttctttcag
 |||||||||||||||||||||||||| |||||||||| ||||||||||||||||| |||||| |||||||||||||||||||||||||||||||| ||||||| ||         || | |  |||| ||| ||| || |   | ||  || ||  ||    ||||| ||||| ||||||  |  ||  || | |||   ||    || |||
GCTTGAATATGTGCCAGAAACTGTTCACCGTGTTATTAAACATTACAATAAGATGAACCAACGGATGCCATTGATTTATGTTAAACTTTATATGTATCAGgtaatgtctttcattttgtaagtaccttccaatacagctttgattgtgtccttttttgtaccaataattatttttactgaa--cctttggtttttattggactaaatttacag

upper sequence: LOC_Os01g19150.4 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv07s0005g02100.t01 (Vitis vinifera), 5'ss of exon 5
TCTTGAATATGTGCCAGAAACTGTTCATCGTGTTATTAGACATTACAATAAGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaag-gttgcaggcgccttacaacacaactatagctatgcactattagttttgataatgattttaactgaaaactgttcattgtcatttctgttctttcag----
 ||||| ||||| || || ||||||||||| || || | ||| ||||||||||||| |||  | |||||| |||| ||||| |||||||| |  ||||||||  |  ||  |      | | |     | | ||   |  |  |  |  |||| ||  | |||  |    ||  ||||| | | |   |  |  | |  ||     
GCTTGAGTATGTCCCTGAGACTGTTCATCGGGTGATCAAACACTACAATAAGATGAACCAGAGGATGCCAATGATATATGTGAAACTTTACACTTACCAGgtttgtattatatatatat-atagtctgattttattaa--ctttgctgttttttatttttattcca---caatcctgttgaatttatatctttatatggcactatt
















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|29628248|gb|CB633259.1|CB633259
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGAGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|33683226|gb|CF311465.1|CF311465
EST:     ACTTTATATGTACCAG                         ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: ACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|29668828|gb|CB665103.1|CB665103
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|29628183|gb|CB633194.1|CB633194
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGAGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|29637277|gb|CB642286.1|CB642286
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|29666642|gb|CB662917.1|CB662917
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|218502361|gb|FG956952.1|FG956952
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGAGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|29668963|gb|CB665238.1|CB665238
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA