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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttgaatgtttctgttttatccactgggtatctcccatctctgttacttttctctgccaatacttttacactaatctcctttactattaactgttgcagGCTTAAAATATTTGCTCCAATCACAGTTCTAGCATTTATTATTCTTGTGCCTGTTAATTGGACCAATATTACCCTTCAAAGCTCGAAGGTGCAGCACAGT

Basic information

species Oryza sativa
transcript LOC_Os01g35050.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g35050.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G163334_T01 (Zea mays), 3'ss of exon 1
--tgttgaatgtttctgttttatccactgggtatctcccatctctgtt-acttttctctgccaatacttttacactaatctcctttactattaactgttgcagGCTTAAAATATTTGCTCCAATCACAGTTCTAGCATTTATTATTCTTGTGCCTGTTAATTGGACCAATATTACCCTTCAAAGCTCGAAGGTGCAGCACAGT
       ||| ||| |  ||||| | ||  |  || |  ||        |  ||  | |  |  ||| | ||  || || | ||||  | | |  |||| ||| ||||||||||||||||||||| |||||||||| || ||| ||||||| ||||||||||||||||||  ||| || |||  ||| ||| |  ||||||| 
gaatcaaaatatttgtactttattccctttggttcactgattgacacccatcttattttttctttacatgta--cttatttactttgtt-tcacttgttacagACTTAAAATATTTGCTCCAATCTCAGTTCTAGCTTTCATTGTTCTTGTCCCTGTTAATTGGACCAATGATACTCTGCAATTCTCAAAGTTAGAGCACAGC

upper sequence: LOC_Os01g35050.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G021194_T01 (Zea mays), 3'ss of exon 2
--tgttgaatgtttctgttttatccactgggtatctcccatctctgtt-acttttctctgccaatacttttacactaatctcctttactattaactgttgcagGCTTAAAATATTTGCTCCAATCACAGTTCTAGCATTTATTATTCTTGTGCCTGTTAATTGGACCAATATTACCCTTCAAAGCTCGAAGGTGCAGCACAGT
       ||  ||| |  ||||| | ||  |  || |  ||        |  ||  | |  |  ||| | ||  || || | ||||  | | |  |||| ||| ||||||||||||||||||||| |||||||||| || ||| ||||||| ||||||||||||||||||  ||| || |||  ||||||| |  ||||||| 
gaatcaaaacatttgtactttattccctttggttcactgattgacacccatcttattttttctttacatgta--cttatttactttgtt-tcacttgttacagACTTAAAATATTTGCTCCAATCTCAGTTCTAGCTTTCATTGTTCTTGTCCCTGTTAATTGGACCAATGATACTCTGCAATTCTCGAAGTTAGAGCACAGC
















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|58609230|gb|CK037263.1|CK037263
EST:     AGCCATGCAGGCCTTGATTCAGCTGTCTATCTGCGGATCTACTTAATAGG                         GCTTAAAATATTTGCTCCAATCACAGTTCTAGCATTTATTATTCTTGTGCC
genomic: AGCCATGCAGGCCTTGATTCAGCTGTCTATCTGCGGATCTACTTAATAGGgtatgcaatt ... actgttgcagGCTTAAAATATTTGCTCCAATCACAGTTCTAGCATTTATTATTCTTGTGCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttttctctgccaatacttttacactaatctcctttactattaactgttgcagGCTTAAAATATTTGCTCCAATCACAGTTCTAGCATTTATTATTCTTGTGCCTGTTAATTGGACCAATATTACCCTTCAAAGCTCGAAGGTGCAGCACAGT
                                        tattaac  putative branch site (score: 1)
                                   tttactattaa  TA-rich tract