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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaatggagggagggagtattttataatgtactgcaattttacgttatcttatctcagttccctgagtgaatattctgatgccataatcatttcaacagTTTACACCCCGGAGCAGCTAGTTGCGAAATACAGCAATTTAGTGTTTGTTCTCTATTGCATGTCACTGGTCTTTGTGGTTGCATTCAATCAGTATCTCTA

Basic information

species Oryza sativa
transcript LOC_Os02g31874.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G144254_T03 (Zea mays), 3'ss of exon 3
----------------------------aaaaatggagggaggg-agtat-tttataatgtactgcaattttacgttatcttatctca-gttccctgagtgaatattctgatgccataatcatttcaacagTTTACACCCCGGAGCAGCTAGTTGCGAAATACAGCAATTTAGTGTTTGTTCTCTATTGCATGTCACTGGTCTTTGTGGTTGCATTCAATCAGTATCTCTA
                              | ||| ||     | || || |||  |||||   |   |   |  || | || | ||  | | ||   ||     | ||||  | | ||| || |   |||||||||| |||||||||||  | || |||||||||||||| ||||||||||| |||||||||||| |||||||||| |||||||| || || ||||||||
gtatgggttgttccatttgccatttctactatatgtagtatcagcagcatatttgcaatgtcgagatgtgcaattttgttttttttcgtggtgcccatgtactcctgctgacactaaaattatcttgtcagTTTACACGCCGGAGCAGCTGATAGCAAAATACAGCAATTTGGTGTTTGTTCTTTATTGCATGTCATTGGTCTTTGTTGTTGCATTTAACCACTATCTCTA

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G477146_T02 (Zea mays), 3'ss of exon 6
aaaaatggagggagggagtattttataatgtactgcaattttacgttatcttatctcagttccctgagtgaatattctgatgccataatcatttcaacagTTTACACCCCGGAGCAGCTAGTTGCGAAATACAGCAATTTAGTGTTTGTTCTCTATTGCATGTCACTGGTCTTTGTGGTTGCATTCAATCAGTATCTCTA
               |  |   ||  ||||||  |   |   |  || | |  |||  ||| |||  ||     | ||||| | | ||| || |   |||||||||| |||||||||||  | || |||||||||||||| ||||||||||| |||||||||||| |||||||||| ||||| || || || ||||||||
---------------gtatgggttgcaatgtagagacgtgcaattttgtttcttctt-gtttcctatgtagtcgtgctgatactaaaattatgttgtcagTTTACACGCCGGAGCAGCTGATCGCAAAATACAGCAATTTGGTGTTTGTTCTTTATTGCATGTCATTGGTCTTTGTTGTTGCGTTTAACCATTATCTCTA
















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|58688305|gb|CK076992.1|CK076992
EST:     TGTATTTGGCAATATCTTCCTAGTTTCCTTTGGTAATCATCAATCTCCAG                         TTTACACCCCGGAGCAGCTAGTTGCGAAATACAGCAATTTAGTGTTTGTTC
genomic: TGTATTTGGCAATATCTTCCTAGTTTCCTTTGGTAATCATCAATCTCCAGgtatgagtta ... atttcaacagTTTACACCCCGGAGCAGCTAGTTGCGAAATACAGCAATTTAGTGTTTGTTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcttatctcagttccctgagtgaatattctgatgccataatcatttcaacagTTTACACCCCGGAGCAGCTAGTTGCGAAATACAGCAATTTAGTGTTTGTTCTCTATTGCATGTCACTGGTCTTTGTGGTTGCATTCAATCAGTATCTCTA
                             ttctgat  putative branch site (score: 3)
                                           tcatttc  putative PPT
                                       ataatcattt  TA-rich tract