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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgctgggaacatacctgtatcataagttttaatccttcttgagtggtgttggcatatttatacccatgttgataatttcactagGTTTTATTGAATGAAGTAGCTCCAAGGCCTCACAACAGTGGGCATCACACAATTGAGTCATGTTATACCTCGCAATATGAGCAACATTTACGTGCTATTC

Basic information

species Oryza sativa
transcript LOC_Os01g10280.4
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g10280.4 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G133121_T01 (Zea mays), 3'ss of exon 8
gtttgctgggaacatacctgtatcat---aagttttaatccttcttgagtggtgttggcatatttatacccatgttgataatttcactagGTTTTATTGAATGAAGTAGCTCCAAGGCCTCACAACAGTGGGCATCACACAATTGAGTCATGTTATACCTCGCAATATGAGCAACATTTACGTGCTATTC
||||  | ||| |||     |||  |   ||  |||| ||||  | ||||||||||  |||  |||| |   ||||| |  |||| |||| ||||||||||||| ||||| || ||||||||||| ||||||||||||||||| |||||||| || ||||| ||||||||||| ||| |||| |||||||
gtttttttggaccatctacatattttttcaaaatttattcctcttggagtggtgtttacatcattatccttgtgttg-ttctttctctagATTTTATTGAATGAGGTAGCCCCTAGGCCTCACAATAGTGGGCATCACACAATAGAGTCATGCTACACCTCACAATATGAGCAGCATATACGCGCTATTC

upper sequence: LOC_Os01g10280.4 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA20G36930.1 (Glycine max), 3'ss of exon 8
-----------------------------------------------------------------------------------gtttgctgggaacatacctg----tatcataagttttaatccttcttgagtggtgttggcatatttatacccatgttgataatttcac-tagGTTTTATTGAATGAAGTAGCTCCAAGGCCTCACAACAGTGGGCATCACACAATTGAGTCATGTTATACCTCGCAATATGAGCAACATTTACGTGCTATTC
                                                                                    ||| |  | ||  |  |||    |   ||     |  ||  |  |||  ||    |  | |  |  |  |||||    |  ||   |  || ||||||| |||||||| || || || |||||||| ||||| |||||||||||||| || || |||||||| ||||||||||||||||| || ||| || 
gttgtgacttttttcttcatcaactctggaaatgcctcaatgtttttgttttttgttttttcttgactgctgaattgacttctttttacaagtaaattttctgccgttgcaatgcaaatgcattatatttgtttgtcaatcccctgatagtgaccatgcctgtgtttcttcacagATTTTATTAAATGAAGTGGCACCTAGACCTCACAATAGTGGTCATCACACAATTGAATCTTGCTATACCTCACAATATGAGCAACATTTGCGGGCTGTTG

upper sequence: LOC_Os01g10280.4 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA10G30620.1 (Glycine max), 3'ss of exon 7
------------------------------------------gtttgctgggaacatacctgtatcataagtttt----aatccttcttgagtggtgttggcatatttatacccatgttgataatttcac-tagGTTTTATTGAATGAAGTAGCTCCAAGGCCTCACAACAGTGGGCATCACACAATTGAGTCATGTTATACCTCGCAATATGAGCAACATTTACGTGCTATTC
                                           |||  |      |   ||||||       |||    ||      |||  || |  |  | |  |  |  |||||    |  ||   |  || ||||||| |||||||| || || || |||||||| |||||||||||||||||||| || || |||||||| ||||||||||||||||| || ||| || 
gttctgacttttttcttcatcaactctggatatgcttcaatgtttttttttcttgactgctgtattgagttctttttacaagtaaatttgtttgttaatcccctgatagtgaccatgcctgtgtttcttcacagATTTTATTAAATGAAGTGGCGCCTAGACCTCACAATAGTGGGCATCACACAATTGAATCTTGCTATACCTCACAATATGAGCAACATTTGCGGGCTGTTG

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|58684677|gb|CK073364.1|CK073364
EST:     AAGGTGCTGGTGTTTTCGCTGTAGAATTATTTTTAACACAAGATAATCAG                         GTTTTATTGAATGAAGTAGCTCCAAGGCCTCACAA
genomic: AAGGTGCTGGTGTTTTCGCTGTAGAATTATTTTTAACACAAGATAATCAGgtttgctggg ... atttcactagGTTTTATTGAATGAAGTAGCTCCAAGGCCTCACAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatccttcttgagtggtgttggcatatttatacccatgttgataatttcactagGTTTTATTGAATGAAGTAGCTCCAAGGCCTCACAACAGTGGGCATCACACAATTGAGTCATGTTATACCTCGCAATATGAGCAACATTTACGTGCTATTC
                                              tttcact  CT-rich tract
                        atatttata  TA-rich tract