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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACAGTTACTGATTTAGACAATGTTAGTGTTGTTCCTGGTGTGAGTTCTGGCGAAGGTTGCTCTATACATGGGGGCTGCGCTTCATGCCCATACATGAAGgttggtggtgattaaatatatattgtttatttacgtaagcttttcgattatgttattgaaatgaacatgtaagctttgttcaagacatctatatacatcc...

Basic information

species Oryza sativa
transcript LOC_Os12g19304.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g19304.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G061732_T01 (Zea mays), 5'ss of exon 2
AACAGTTACTGATTTAGACAATGTTAGTGTTGTTCCTGGTGTGAGTTCTGGCGAAGGTTGCTCTATACATGGGGGCTGCGCTTCATGCCCATACATGAAGgttggtggtgattaaatatatattgtttatttacgtaagcttttcgattatgttattgaaatgaacatgtaagctttgttcaagacatctatatacatcc-----
||  | |||||||||  | | | ||| | |||||||||||||||||||||||||||| ||||| || ||||| || || || || || || ||||||||||||||||     |   | | | |  |  || |   |  |||     |  ||   | |  |    || |||   |||  |   ||   |||||     |       
AATGGCTACTGATTTGAATAGTCTTACTATTGTTCCTGGTGTGAGTTCTGGCGAAGGCTGCTCCATTCATGGTGGTTGTGCCTCGTGTCCCTACATGAAGgttggtgccacctttctgtttgtcataaatat---tttgctacaatacaataccagt--acctcacctgttgccttgataacaggtctctatgagagtgtcatct

upper sequence: LOC_Os12g19304.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G142836_T01 (Zea mays), 5'ss of exon 4
AACAGTTACTGATTTAGACAATGTTAGTGTTGTTCCTGGTGTGAGTTCTGGCGAAGGTTGCTCTATACATGGGGGCTGCGCTTCATGCCCATACATGAAGgttggtggtgattaaatatatattgtttatttacgtaagcttttcgattatgttattgaaatgaacatgtaagctttgttcaagacatctatatacatcc-
||  | ||||||||| || ||| ||| | |||||||||||||||||||||||||||| ||||| || ||||| || || || || || || ||||||||||||||||     |   | | | |  |  || |       |  | | || |   |  ||   |  |    |||| |       |  |     |||   |   
AATGGCTACTGATTTGGATAATCTTACTATTGTTCCTGGTGTGAGTTCTGGCGAAGGCTGCTCCATTCATGGTGGTTGTGCCTCGTGTCCCTACATGAAGgttggtgccacctttctgtttgtcataaatattttgctacaatacaat-acaatgctgttttttattgctaagatgaaaaataatctgtagtatgtgttga

upper sequence: LOC_Os12g19304.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT5G50210.1 (Arabidopsis thaliana), 5'ss of exon 5
---AACAGTTACTGATTTAGACAATGTTAGTGTTGTTCCTGGTGTGAGTTCTGGCGAAGGTTGCTCTATACATGGGGGCTGCGCTTCATGCCCATACATGAAGgttggtggtgattaaatatatattgtttattt-acgtaagcttttcgattatgttattgaaatgaacatgt--aagctttgttcaagacatctatatacatcc
    | ||||  |||| | | || |    ||  ||| || || ||      ||| |||||||||||||| ||||| || || || ||||||||||| ||||||||   |  |   |  ||    ||  || |||| |  ||      |  || |   ||||      | ||     ||   ||||   | | ||  |         
CATTAAAGTTGGTGATGT-GGCACTACCGGT--TGTACCGGGAGTAGCAGGTGGTGAAGGTTGCTCTATTCATGGCGGATGTGCATCATGCCCATATATGAAGgtcatttattgctttat---catcattcatttgatatagatcgctaaatgaatctatttgctccatcaaactcaaagcttgtgtgata-atgcag--------

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|9865018|gb|AU100768.1|AU100768
EST:     NCGAAGGTTGCTCTATACAT-GGGGNTGCGCTTCATGCCCATACATGAAG                         ATGAATTCTTTAAGATCACTGCTTAAAGTATGCCATCAGCTTCCTGACAGA
genomic: GCGAAGGTTGCTCTATACATGGGGGCTGCGCTTCATGCCCATACATGAAGgttggtggtg ... ttccatgcagATGAATTCTTTAAGATCACTGCTTAAAGTATGCCATCAGCTTCCTGACAGA
EST: gi|58602344|gb|CK012872.1|CK012872
EST:     GCGAAGGTTGCTCTATACATGGGGGCTGCGCTTCATGCCCATACATGAAG                         ATGAATTCTTTAAGATCACTGCTTAAAGTATGCCATCAGCTTCCTGAC
genomic: GCGAAGGTTGCTCTATACATGGGGGCTGCGCTTCATGCCCATACATGAAGgttggtggtg ... ttccatgcagATGAATTCTTTAAGATCACTGCTTAAAGTATGCCATCAGCTTCCTGAC