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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTTCGTTTCCTGGAAAAACTCTGTGCTGATTCTCAAATCTTGGTAGACATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAGgtaatttataatactgtaattgagctatagtgagcttctttttaaaggtccccccgaaggacctataacactcattaggatgctaaccagatattgtgttatcttaattttggactacag

Basic information

species Oryza sativa
transcript LOC_Os03g14260.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g14260.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G058870_T01 (Zea mays), 5'ss of exon 2
TTCTTCGTTTCCTGGAAAAACTCTGTGCTGATTCTCAAATCTTGGTAGACATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAGgtaatttataatactgtaattgagctatagtgagcttctttttaaaggtccccccgaaggacctataacactcattaggatgctaaccagatattgtgttatcttaattttggactacag
||||||||||  ||||||| ||||||| ||||||||||||| | || || ||||| || ||||||||||||||||| ||||||||||||||||||||||||||          |||     ||||   | | || ||  ||   |  |  |      || |    | | | | | ||   |  |    | || ||   | ||     ||||   | | ||
TTCTTCGTTTTTTGGAAAAGCTCTGTGGTGATTCTCAAATCCTAGTTGATATTTTCCTTAATTATGATTGTGATGTCCACTCATCAAACATATTTGAGAGgta----------ctg-----gagc---attcagttttctt---agtgctctggttcagcattagttatatttactattctttttgtgatattttacttgat----gttttaaccaatag

upper sequence: LOC_Os03g14260.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA09G40480.1 (Glycine max), 5'ss of exon 2
TTCTTCGTTTCCTGGAAAAACTCTGTGCTGATTCTCAAATCTTGGTAGACATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAGgtaatttataatactgtaattgagctatagtgagcttctttttaaaggtccccccgaaggacctataacactcatta---ggatgctaaccagatattgtgttatcttaattttggactacag
| |||||||| ||  | || || |||| |||||| || || ||||||||||||||| |||| ||||| ||||||||  | ||| ||||||||||||||||||   ||   ||  | |  || |  | | || |   ||| |  | |  |           || | ||  | | || |   |||| |  |      | | | |||||                 
TGCTTCGTTTTCTACAGAAGCTTTGTGATGATTCACAGATATTGGTAGACATTTTTATCAACTATGACTGTGATGTCAATTCAACAAACATATTTGAGAGgt---ttgctatgttttgtttta--tttggt-attctctatgaataatttgttttattttacatttataatttataatatggatccccattccccagtttattatc-----------------

upper sequence: LOC_Os03g14260.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA18G45340.1 (Glycine max), 5'ss of exon 2
TTCTTCGTTTCCTGGAAAAACTCTGTGCTGATTCTCAAATCTTGGTAGACATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAGgtaatttataatactgtaattgagctatagtgagcttctttttaaaggtccccccgaaggacctataacactcattaggatgctaaccagatattgtgttatcttaattttggactacag
| ||||| || ||||| || || |||| |||||| || || ||||| ||||| ||| |||| ||||| ||||||||  | |||||||| |||||||||||||    |||  || | || || |  | |  |     | || ||  |  | |     ||     ||  |    || |   ||| | |    |||| |    ||||||| |||         
TGCTTCGATTTCTGGATAAGCTTTGTGTTGATTCACAGATATTGGTTGACATATTTATCAACTATGACTGTGATGTCAATTCATCAAATATATTTGAGAGgtgtgctat--tattttatttaattttttatagttgttttatttgatttactgtataaa----taatatgtgcagtttcatgttta--gaatatgg----atcttaagttta--------

upper sequence: LOC_Os03g14260.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA01G34560.1 (Glycine max), 5'ss of exon 2
TTCTTCGTTTCCTGGAAAAACTCTGTGCTGATTCTCAAATCTTGGTAGACATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAGgtaatttataatactgta-attgagctatagtgagcttctttttaaaggtccccccgaaggacctataacactcattaggatgctaaccagatattgtgttatcttaattttggactacag
| ||||| || ||||| || || |||| |||||| || || ||||| ||||| ||| |||| ||||| ||||||||  | |||||||| |||||||||||||    ||| ||  | |  | |    |||||| |  || | ||| |    |      ||  |  | |                                                      
TGCTTCGATTTCTGGATAAGCTTTGTGTTGATTCACAGATATTGGTTGACATATTTATCAACTATGACTGTGATGTCAATTCATCAAATATATTTGAGAGgtgtgctattattttatttaattttttatagtta--ttttatttgatttactgtataaataatatgtgcag--------------------------------------------------

upper sequence: LOC_Os03g14260.1 (Oryza sativa), 5'ss of exon 2
lower sequence: AT1G01960.1 (Arabidopsis thaliana), 5'ss of exon 2
TTCTTCGTTTCCTGGAAAAACTCTGTGCTGATTCTCAAATCTTGGTAGACATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAGgtaatttataatactgtaat-tgagctatagtgagcttctt--tttaaaggtccccccgaa--ggacctataa-cactcattaggatgctaacca---gatattgtgtt-atcttaattttggactacag--------------
| ||||| ||| |||| || ||||| | |||||| || || |||||||| || ||  |||| |||||||| |||||  ||||||| || ||||||||||||||   | |||||   |  | ||   |||  | |    ||   | ||    |      | |   || ||   | || | | |||  ||| ||| |   ||  | |  || || |   | ||||  | |                
TGCTTCGGTTCTTGGACAAGCTCTGCGTTGATTCACAGATTTTGGTAGATATCTTCATCAACTATGATTGCGATGTCAACTCATCCAATATATTTGAGAGgtatgatctaatatcttgttgtggcttatctttacgccctgaatctatttattttgtggtatcagagctgcgatcattaactag--tgcgaactatttgaagtagcattcatttctgtattggttttcttgaccttgtttttag

upper sequence: LOC_Os03g14260.1 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv15s0048g00800.t01 (Vitis vinifera), 5'ss of exon 2
TTCTTCGTTTCCTGGAAAAACTCTGTGCTGATTCTCAAATCTTGGTAGACATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAGgtaatttataatactgtaattgagct-atagtgagcttctttttaaaggtccccccgaaggacctataacactcattaggatgctaaccagatattgtgttatcttaattttggactacag
| ||||| || || || |||||||||| |||||| || || || |||||||| ||  |||||||||||||||||||  | |||||||||||||| ||||||||  |  |  |    |  ||  | | |||   |  |||  ||  |      | |    ||   || || |    ||  | || |  | |     | |||||                   
TGCTTCGGTTTCTAGAGAAACTCTGTGTTGATTCACAGATTTTAGTAGACATATTCATCAATTATGATTGTGATGTCAATTCATCAAACATATTCGAGAGgtatgtcctgtttggttttttttgttgatacaaatattcaattatacaaaagcacttctggttgtaaaaaat---ttcagttggtggcaaagctctttgttac------------------

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|86845487|gb|CI346860.1|CI346860
EST:     ATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAG                         GATGGTTAATGGTCTACT
genomic: ATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAGgtaatttata ... tggactacagGATGGTTAATGGTCTACT
EST: gi|569328|gb|D40177.1|D40177
EST:     ATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAG                         GATGGTTAATGGNCTACTAAAA-CAGCACAAGGGCCTCCAGCAGGCGGTGT
genomic: ATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAGgtaatttata ... tggactacagGATGGTTAATGGTCTACTAAAAACAGCACAAGGGCCTCCAGCAGGCG-TGT
EST: gi|56158434|gb|AU077870.2|AU077870
EST:     ATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAG                         GATGGTTAATGGTCTACTAAAAACAGCACAAGGGCCTCCAGCAGGCGTGTC
genomic: ATTTTTCTCAATTATGATTGTGATGTACACTCATCAAACATATTTGAGAGgtaatttata ... tggactacagGATGGTTAATGGTCTACTAAAAACAGCACAAGGGCCTCCAGCAGGCGTGTC