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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTCAAAACTTTGCAAAGATGTTTGATATCACTTTTGAGAATGATAAGGGCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCGgtaattctcatatattgttaaattttggaatgtacctggaattttcttcttgttttgcccttttgaagtggtaatgttttacaaaagaaatgaggctttt...

Basic information

species Oryza sativa
transcript LOC_Os12g25710.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g25710.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G094123_T01 (Zea mays), 5'ss of exon 8
TGGTCAAAACTTTGCAAAGATGTTTGATATCACTTTTGAGAATGATAAGGGCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCGgtaattctcatatattgttaaattttggaatgtacctggaattttcttcttgttttgcccttttgaagtggtaatgttttacaaaagaaatgaggctttt----
||||||||||||||| ||||||||||||||||||||||||||||| || ||    ||    ||||| ||||| ||||||||||| ||||| |||||||||||| ||||||    |  ||  ||||  || || | |  | ||  |     ||          |    |   | || || ||      |  |||  |||||    
TGGTCAAAACTTTGCCAAGATGTTTGATATCACTTTTGAGAATGAGAAAGGTGTTAGGGAAATGGTTTGGCAAAACTCTTGGGCCTACACAACCCGCTCGgtacttctcac---tcctttgatttaaga-tgcatcatgcatgattgatgtggggatgggaatgattgctttcattttgtaggctgcacctgatacttttgtcc

upper sequence: LOC_Os12g25710.2 (Oryza sativa), 5'ss of exon 9
lower sequence: AT3G62120.2 (Arabidopsis thaliana), 5'ss of exon 8
TGGTCAAAACTTTGCAAAGATGTTTGATATCACTTTTGAGAATGATAAGGGCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCGgtaatt-ctcatatattgttaaattttggaatgtacctggaattttcttcttgttttgcccttttgaagtggtaatgttttacaaaagaaatgaggctttt
 || ||||||||||| ||||||||||| ||||  ||||||||||| || |     | |   |||||||||||||| |||||||| ||||  ||| |  |||||| | ||   |  |  ||| ||| |       |  ||   |     | ||   ||  | |||| ||      |  ||||| |                 
GGGACAAAACTTTGCGAAGATGTTTGAGATCAACTTTGAGAATGAGAAAGCAGAGACAGAAATGGTGTGGCAGAATTCTTGGGCCTACAGTACCAGGACGgtaaatacttggaagtacttagattatttttctcatgtgctctacaactgttaacttatcattttcaa------accttttatag----------------

upper sequence: LOC_Os12g25710.2 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv07s0005g02620.t01 (Vitis vinifera), 5'ss of exon 9
TGGTCAAAACTTTGCAAAGATGTTTGATATCACTTTTGAGAATGATAAGGGCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCGgtaattctcatatattgttaaattttggaatgtac--ctggaattttcttcttgttttgcccttttgaagtggtaatgttttacaaaagaaatgaggctttt-
 |||||||| |||||||| ||||||||||| || ||||| ||||| |||||   ||   | ||||| |||||||| || ||||| ||||  ||| |  |||||| |     | ||| ||    ||||   || |    |  |||||        || ||        | | ||  ||  ||| ||      ||| |  || | 
AGGTCAAAATTTTGCAAAAATGTTTGATATAACCTTTGAAAATGAGAAGGGAGAAAAGGCTATGGTCTGGCAGAATTCCTGGGCCTACAGTACCAGAACGgtaaataaatgacattttttttgtttgagttgaaaagttctaatttaacagcaattatgtttccaaaagggggggataattttcat---gcatgggatttctt

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|109974677|gb|DT807041.1|DT807041
EST:     GCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCG                         ATTGGGGTGATGGTGATGACACACGGAGATGACAAAGGTTTAGTGCTTCCA
genomic: GCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCGgtaattctca ... tgttttgcagATTGGGGTGATGGTGATGACACACGGAGATGACAAAGGTTTAGTGCTTCCA
EST: gi|33811197|gb|CF331488.1|CF331488
EST:     GCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCG                         ATTGGGGTGATGGTGATGACACACGGAGATGAC
genomic: GCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCGgtaattctca ... tgttttgcagATTGGGGTGATGGTGATGACACACGGAGATGAC
EST: gi|218482159|gb|FG950601.1|FG950601
EST:     GCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCG                         ATTGGGGTGATGGTGATGACACACGGAGATGACA
genomic: GCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCGgtaattctca ... tgttttgcagATTGGGGTGATGGTGATGACACACGGAGATGACA
EST: gi|218493888|gb|FG946861.1|FG946861
EST:     GCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCG                         ATTGGGGTGATGGTGATGACACACGGAGATGACAAAGGTTTAGTGCTTCCA
genomic: GCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCGgtaattctca ... tgttttgcagATTGGGGTGATGGTGATGACACACGGAGATGACAAAGGTTTAGTGCTTCCA
EST: gi|86901842|gb|CI298489.1|CI298489
EST:     GCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCG                         ATTGGGGTGATGGTGATGACACACGGAGATGACAAAGGTTTAGTGCTTCCA
genomic: GCTCAAGATCCATGGTGTGGCAGAACTCTTGGGCATACACCACCCGCTCGgtaattctca ... tgttttgcagATTGGGGTGATGGTGATGACACACGGAGATGACAAAGGTTTAGTGCTTCCA