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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTGGTGCTGGAAACTATGGAATGTGTGGACGTGCATACAGTCCAAATTTTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaaaacttatctttttgttgattcagcttgtcatataacttttacttgtacaatttcctagtcaagaatttcatgattgtaattattggcattccatt...

Basic information

species Oryza sativa
transcript LOC_Os08g32850.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G702490_T01 (Zea mays), 5'ss of exon 7
TTTTGGTGCTGGAAACTATGGAATGTGTGGACGTGCATACAGTCCAAATTTTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaaaacttatctttttgttgattcagcttgtcatataacttttacttgtacaatttcctagtcaagaatttcatgattgtaattattggcat-tccatt
|||||| ||||| || ||||||||||| ||||||||||| || ||||| ||||| ||| | ||||||||||||||||||||||| ||||||||||||||||||| | |        |||||  | | | |      |  |   | ||||    |||||   ||| ||  || | || ||||         | || || || 
TTTTGGGGCTGGGAATTATGGAATGTGCGGACGTGCATATAGCCCAAACTTTTTATTTCTTTGGCCAACTGCTAGGATATCTGTTATGGGTGGCATCCAGgtaagagccctcacacttgttattgctgttgcagcaactagactgacttaactaatttagaagt-aaccatattatcattgcctggcagagaatgtctata

upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT4G34030.1 (Arabidopsis thaliana), 5'ss of exon 8
TTTTGGTGCTGGAAACTATGGAATGTGTGGACGTGCATACAGTCCAAATTTTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaa----aacttatctttttgttgattcagcttgtcatataacttttact-tgtacaatttcctagtcaagaatttcatgattgtaattattggcattccatt-----------------------------
 ||||||||||||||||||| ||||||||| ||||||||||||||| ||||| |||| || |||||||  || || ||     ||||||| |||   ||||||||    ||   | |    |||| |  | |      |  | | |   | | |||  |   || ||||  || |   ||  |||    ||  |    ||  |                               
CTTTGGTGCTGGAAACTATGCAATGTGTGGGCGTGCATACAGTCCAGATTTTATGTTCATTTGGCCAAACGCCAGAATTGGCATCATGGGAGGCGCTCAGgtaaaccagaatgcaccgaaatgtttaaaccgaaaccaaactgaatcaaaatgtgtttataatcttagtgtagcagaacaaaattcagtttggttttgtttgacgttgttattggcttggcgaaaactttgcag

upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv03s0063g00290.t01 (Vitis vinifera), 5'ss of exon 8
TTTTGGTGCTGGAAACTATGGAATGTGTGGACGTGCATACAGTCCAAATTTTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaaaacttatctttttgttgattcagcttgtcatataacttttac-ttgtacaatt-tcctagtcaagaatttcatgattgtaattattggcattccatt----
 |||||||||||||| |||| ||||||||| |||||||| ||||| |||||  ||||  | ||||||| ||| || ||||| || ||||||||    ||||| |        | ||| | | | |  | ||  ||| | ||| | |  ||| | | || || | |   || | ||    ||  ||  |  ||    |   ||    
CTTTGGTGCTGGAAATTATGCAATGTGTGGGCGTGCATATAGTCCCAATTTCATGTTCCTTTGGCCAAATGCCAGAATATCCGTGATGGGTGGTGCTCAGgttag------ccctttagctcaatatgttttgcatgtgactctaatgttgaatacttgtcattgcttagtacttttcaatcttaggtggtgtttgtttttttact

upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 7
lower sequence: EFJ11721 (Selaginella moellendorffii), 5'ss of exon 8
TTTTGGTGCTGGAAACTATGGAATGTGTGGACGTGCATACAGTCCAAATTTTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaaaacttatctttttgttgattcagcttgtcatataacttttacttgtacaatttcctagtcaagaatttcatgattgtaattattggcattccatt
 |  || || || |||||||||||||| |||||||| |||||||| || ||  | ||| |||||||||  |||||||| || |||||||| |||| |||||||      |   | |   || | |    |   |  | | |||||    |  ||                                              
CTACGGCGCCGGGAACTATGGAATGTGCGGACGTGCTTACAGTCCCAACTTCCTTTTTCTGTGGCCAAACGCTAGGATCTCGGTCATGGGAGGCAGCCAGgtatgtttcttcatatagttttacttgagtcagcg-agagcttttttccgatcag---------------------------------------------

upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 7
lower sequence: EFJ22508 (Selaginella moellendorffii), 5'ss of exon 8
TTTTGGTGCTGGAAACTATGGAATGTGTGGACGTGCATACAGTCCAAATTTTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaaaacttatctttttgttgattcagcttgtcatataacttttacttgtacaatttcctagtcaagaatttcatgattgtaattattggcattccatt
 |  || || || |||||||||||||| |||||||| |||||||| || ||  | ||| |||||||||  |||||||| || |||||||| |||| ||||||    |  | ||||  | | | || |    ||    | | |    | ||     ||  |   |||                                  
CTACGGCGCCGGGAACTATGGAATGTGCGGACGTGCTTACAGTCCCAACTTCCTTTTTCTGTGGCCAAACGCTAGGATCTCGGTCATGGGAGGCAGCCAGgt----atgtttcttcatatagttttaaagagttccttgagtca-gcgtgagtttttatccgatcag---------------------------------

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|89194521|gb|CI116958.1|CI116958
EST:     TTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAG                         GCAGCTGGTGTCCTTGCTCAAATAGAGAAGAACAACAGAAAAAGACAAGGA
genomic: TTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaaaactt ... accttttcagGCAGCTGGTGTCCTTGCTCAAATAGAGAAGAACAACAGAAAAAGACAAGGA
EST: gi|29640037|gb|CB645046.1|CB645046
EST:     TTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAG                         GCAGCTGGTGTCCTTGCTCAAATAGAGAAGAACAACAGAAAAAGACAAGGA
genomic: TTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaaaactt ... accttttcagGCAGCTGGTGTCCTTGCTCAAATAGAGAAGAACAACAGAAAAAGACAAGGA
EST: gi|29640075|gb|CB645084.1|CB645084
EST:     TTTTGTTTATGTGGCCAACGGCTAGGATATCTGTCATGGGTGGCATCCAG                         GCAGTTGGTGTCCTTGCTCAAATAGAGAAGAACACCAGAAAAAGACAAGGA
genomic: TTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaaaactt ... accttttcagGCAGCTGGTGTCCTTGCTCAAATAGAGAAGAACAACAGAAAAAGACAAGGA
EST: gi|31818575|gb|CD645562.1|CD645562
EST:     TTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAG                         GCAGCTGGTGTCCTTGCTCAAATAGAGAAGAACAACAGAAAAAGACAAGGA
genomic: TTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaaaactt ... accttttcagGCAGCTGGTGTCCTTGCTCAAATAGAGAAGAACAACAGAAAAAGACAAGGA
EST: gi|29639362|gb|CB644371.1|CB644371
EST:     TTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAG                         GCAGCTGGTGTCCTTGCTCAAATAGAGAAGAACAACAGAAAAAGACAAGGA
genomic: TTTTGTTTATGTGGCCAACTGCTAGGATATCTGTCATGGGTGGCATCCAGgtaaaaactt ... accttttcagGCAGCTGGTGTCCTTGCTCAAATAGAGAAGAACAACAGAAAAAGACAAGGA