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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTGGACCTGCTATGTACTGTTCCGAGAGTATGAGATAATTACAACGATGAGATTGCGGTTTCTTGCTTCAGAGAAACGGCGACCAGACCAGTTTACAgtatgatcttgtcaactttgcaaatcccctctctatttagtaccaacatgtttacattggatccacaagaagggtaaaaaattgtaatattaatggactg...

Basic information

species Oryza sativa
transcript LOC_Os05g51630.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g51630.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G456000_T01 (Zea mays), 5'ss of exon 4
GTTTTGGACCTGCTATGTACTGTTCCGAGAGTATGAGATAATTACAACGATGAGATTGCGGTTTCTTGCTTCAGAGAAACGGCGACCAGACCAGTTTACAgtatgatcttgt-caactttgcaaatcccctctctatt-tagtaccaacatgtttacattggat-ccacaa-gaagggtaaaaaattgtaatattaatggactg----
 ||||||||||| |||||||||||    |||||||| || ||| | |  |||||  |||| ||||| |||||||||||||| |||||||| ||||| || ||||| |||| | | ||| ||       ||| | |||| ||||    |    |||   ||| ||  ||||  |||  ||  ||||     ||||     |        
ATTTTGGACCTGTTATGTACTGTTGAAGGAGTATGAAATTATTTCTAACATGAGGCTGCGCTTTCTAGCTTCAGAGAAACGCCGACCAGATCAGTTCACTgtatgttcttttgctactctg-----ttcctgtttattatagtgtttat---tttgtgttgcatatcacattgaatagttgaaaaagtagatatgccctggtaatttc
















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|29660843|gb|CB657118.1|CB657118
EST:     TGAGATTGCGGTTTCTTGCTTCAGAGAAACGGCGACCAGACCAGTTTACA                         GTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTC
genomic: TGAGATTGCGGTTTCTTGCTTCAGAGAAACGGCGACCAGACCAGTTTACAgtatgatctt ... tttattttagGTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTC
EST: gi|5607371|gb|AU076043.1|AU076043
EST:     TGAGATTGCGGTTTCTTGCTTCAGAGAAACGGCGACCAGACCAGTTTACA                         GTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTC
genomic: TGAGATTGCGGTTTCTTGCTTCAGAGAAACGGCGACCAGACCAGTTTACAgtatgatctt ... tttattttagGTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTC
EST: gi|29683379|gb|CB679654.1|CB679654
EST:     TGAGATTGCGGTTTCTTGCTTCAGAGAAACGGCGACCAGACCAGTTTACA                         GTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTC
genomic: TGAGATTGCGGTTTCTTGCTTCAGAGAAACGGCGACCAGACCAGTTTACAgtatgatctt ... tttattttagGTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTC
EST: gi|58693629|gb|CK082316.1|CK082316
EST:     TGAGATTGCGGTTTCTTGCTTCAGAGAAACGGCGACCAGACCAGTTTACA                         GTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTC
genomic: TGAGATTGCGGTTTCTTGCTTCAGAGAAACGGCGACCAGACCAGTTTACAgtatgatctt ... tttattttagGTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTC