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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTTCCAGCGGGGCGCCGCGCGGGAGTTCATCGTCTTCGTCGCGCGCACCGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAGgtaaacaacccatcgtcctcctcagatctgcctccgcacttagggtttgcttgctttctgacccgatgctcagatccggtcttcacatggacttggatta...

Basic information

species Oryza sativa
transcript LOC_Os01g64650.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G387076_T02 (Zea mays), 5'ss of exon 2
TTCTTCCAGCGGGGCGCCGCGCGGGAGTTCATCGTCTTCGTCGCGCGCACCGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAGgtaaac----aacccatcgtcctcctcagatctgcctccgcacttagggtttg--cttgctttctgacccg-atgctcagatccggtcttcacatggacttggatta
| |||||||||  ||||||| || ||||||||||||||||| || ||||||||||| ||||||||||||||||||||||| ||||||||||||||||||||||| |    | |  ||||   |  |  ||||| |      |  | ||||  |  ||   ||    || ||  ||   | |      ||     | |  |       
TACTTCCAGCGCAGCGCCGCCCGCGAGTTCATCGTCTTCGTTGCCCGCACCGTCGCTCAGCGCACCCAGCCAGGCCAGCGGCAGTCCGTCCAGCACGAAGgtaacctcagatctgatcgg--tttttggatct-ctataagatctggggtccgtactaaattgtccacgcgtgtggggaaaataatgctgtctgttggttcat----

upper sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G178244_T01 (Zea mays), 5'ss of exon 1
TTCTTCCAGCGGGGCGCCGCGCGGGAGTTCATCGTCTTCGTCGCGCGCACCGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAGgtaa------acaacccatcgtcctcctcagatctgcctccgcacttagggtttgcttgctttctgacccgatgctcagatccggtcttcacatggacttggatta
| |||||||||  ||||||| || ||||||||||||||||| || ||||||||||| ||||||||||||||||||||||| ||||||||||||||||||||||       | | |  || | | |  |  ||||       |  ||  ||| || |   ||   | | || ||    ||     | ||  | ||  ||| | |   
TACTTCCAGCGCAGCGCCGCCCGCGAGTTCATCGTCTTCGTTGCCCGCACCGTCGCTCAGCGCACCCAGCCAGGCCAGCGGCAGTCCGTCCAGCACGAAGgtacctcttcagatctgattggctt--ttggatcccatgaggagctccggggtt-cgcactaaattatcc-atatgtagccgtcggctatagatcaactggtag--

upper sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G446711_T01 (Zea mays), 5'ss of exon 1
TTCTTCCAGCGGGGCGCCGCGCGGGAGTTCATCGTCTTCGTCGCGCGCACCGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAGgtaaac----aacccatcgtcctcctcagatctgcctccgcacttagggtttgcttgctttctgacccgatgctcagatccggtcttcacatggacttggatta--
| |||||||||  ||||||| || ||||||||||| ||||| || ||||||||||| || ||||||||||||||||| || ||||||||||||||||||||||| |    | |  |||| | |  || |||||   |  | |  || |||| |  | ||   |   || | |  ||      | ||  | ||   |  |  ||   
TACTTCCAGCGCAGCGCCGCCCGCGAGTTCATCGTTTTCGTTGCCCGCACCGTCGCTCAACGCACCCAGCCAGGCCAACGGCAGTCCGTCCAGCACGAAGgtaacctcagatctgatcggctt--tcggatctctataag-atctatggttcg--tactaaattgtcc-acgggcaaccttcggctatagatccgcaggtgttttg

upper sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA13G19950.1 (Glycine max), 5'ss of exon 1
TTCTTCCAGCGGGGCGCCGCGCGGGAGTTCATCGTCTTCGTCGCGCGCACCGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAGgtaaacaacccatcgtcctcctcagatctgcctccgcacttagggtttgcttgctttctgacccgatg-ctcagatccggtcttcacatggacttggatta--------
| |||||||||   |  ||    ||||||||||||||||||||  |||||||||||||  |||||||  |  ||||| ||||| ||||| || |||||||||        ||| |   | ||      | | | |||| || |||||   ||  | |       | ||  ||||||  || ||||  |  |  ||   ||         
TACTTCCAGCGTTCCAGCGTCAAGGAGTTCATCGTCTTCGTCGGTCGCACCGTCGCCCGTCGCACCCCTCAGGGCCAACGCCAATCCGTACAACACGAAGgttcttt-ttcatagggtttct------ttcttgcgcaatttgggttattttcatgtagtttttgttgattcagat--ggacttcgtaccgcttttttttttgttcacc

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|218482998|gb|FG956126.1|FG956126
EST:     CGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAG                         AATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTA
genomic: CGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAGgtaaacaacc ... atatttgcagAATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTA
EST: gi|88573365|gb|CI664936.1|CI664936
EST:     GTCGCCCAGCCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAG                         AATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTA
genomic: GTCGCCCAGC-GCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAGgtaaacaacc ... atatttgcagAATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTA
EST: gi|4879970|gb|AU064269.1|AU064269
EST:     CGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAG                         AATACAAGGTCCACTCACACAACAGGAATGGTCTTTTGCGCATTTGCATTT
genomic: CGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAGgtaaacaacc ... atatttgcagAATACAAGGTCCACTCACACAACAGGAATGGTCTTT-GCGCAGTTGCATTT
EST: gi|27578119|gb|CB000814.1|CB000814
EST:     CGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAG                         AATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTA
genomic: CGTCGCCCAGCGCACCCAGCCAGGCCAGCGCCAGTCCGTCCAGCACGAAGgtaaacaacc ... atatttgcagAATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTA