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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCCAAGCAAGCTGTCTCTGTATTTGCAGATACGCAGAGCAGTGAAATCAAAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatattttttttatattcaaccattgctaacaaaattaaatattgataatgcatttactggatacttttatcagtattattactttattagttctgt...

Basic information

species Oryza sativa
transcript LOC_Os01g43630.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g43630.2 (Oryza sativa), 5'ss of exon 11
lower sequence: AC198725.4_FGT007 (Zea mays), 5'ss of exon 11
TCCCAAGCAAGCTGTCTCTGTATTTGCAGATACGCAGAGCAGTGAAATCAAAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatattttttttatattc-aaccattgctaacaaaattaaatattgataatgcatttactggatacttt-tatcagtattattactttattagttctgt-
|||||| |||||||||||||||||||||||||| ||||||||||||| ||||||||||||||||||||| |||||||| |||||||| ||||||||||||||||  |  ||  |  |||   ||| |||| ||| ||  ||| |||| || |     || ||| | || ||| | | | | | ||||   |||    | ||| 
TCCCAAACAAGCTGTCTCTGTATTTGCAGATACACAGAGCAGTGAAACCAAAGATCGGATATTTGATGAGTTCAACAGTCTATCAGTTGTATATCAGAAGgtatgcaaattaatcttatctgaactattgataaaaactttacatatggagatc---ttcacttgctattttatgtgattctgattatcatatagcgtgtgtt

upper sequence: LOC_Os01g43630.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G029077_T01 (Zea mays), 5'ss of exon 9
TCCCAAGCAAGCTGTCTCTGTATTTGCAGATACGCAGAGCAGTGAAATCAAAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatattttttttatattc-aaccattgctaacaaaattaaatattgataatgcatttactggatacttttatcagtattattactttattagttctgt----
|||||||||||||||||||||||||||||| || ||||||||||||||||||||||||||||| ||||| |||||||| |||||||| ||||||||||||||||  |  ||  |   ||   ||||||||||||     ||| |||| || |   | |||||| | || ||||||  | ||| | | | | || | |        
TCCCAAGCAAGCTGTCTCTGTATTTGCAGACACACAGAGCAGTGAAATCAAAGATCGGATATTCGATGAGTTCAACAGTCTATCAGTTGTATATCAGAAGgtatgcaaattaatctgatctgaaccattgctaaattttttacatatggaga---cctttacttgcta-ttttatgcg-attctgagtgtgtttggttgcccgca

upper sequence: LOC_Os01g43630.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA04G08480.1 (Glycine max), 5'ss of exon 9
TCCCAAGCAAGCTGTCTCTGTATTTGCAGATACGCAGAGCAGTGAAATCAAAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatattttttttatattcaacc--attgct--aacaaaattaaatattgataatgcatttactggatacttttatcagtattattactttattagttctgt
||| |||||||| || || |||||||| ||||| ||||||||||||||||||||||| |||||||||||||| |||||  | || || ||||| || ||||||  || | |       | |  ||   | |||  ||  |||  || ||||  |  ||  |||   |  || ||| |   || |     | ||  ||  | |  
TCCAAAGCAAGCAGTTTCAGTATTTGCTGATACTCAGAGCAGTGAAATCAAAGATCGCATATTTGATGAATTTAACAGTTTGTCTGTTGTATACCAAAAGgtaactaatctacccgcttccttcccagtggctttaatgaaacaaattattcgt--tgagtttg--gactaatttgaagtgtttcgcaccatttctaaatttaa

upper sequence: LOC_Os01g43630.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA06G08590.1 (Glycine max), 5'ss of exon 9
TCCCAAGCAAGCTGTCTCTGTATTTGCAGATACGCAGAGCAGTGAAATCAAAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatatttt----ttttatattcaaccattgctaacaaaattaaatattgataatgcatttactggatacttttatcagtattattactttattagttctgt
||| |||||||| || || |||||||| ||||| || |||||||||||||||||||| |||||||||||||| |||||  | || || ||||| || ||||||  || | |    | ||   | | |       |||  |||  || |||| ||  ||  |||   |  || |||||      |     | ||  ||  | |  
TCCAAAGCAAGCAGTTTCAGTATTTGCTGATACTCAAAGCAGTGAAATCAAAGATCGCATATTTGATGAATTTAACAGTTTGTCTGTTGTATACCAAAAGgtaactaatctactgtcttccctcccagtggctttaatgaaacaaattattcat--tgagtttg--gactaattttaagtacttcgcaccatttctaaatttaa

upper sequence: LOC_Os01g43630.2 (Oryza sativa), 5'ss of exon 11
lower sequence: AT5G11490.1 (Arabidopsis thaliana), 5'ss of exon 9
TCCCAAGCAAGCTGTCTCTGTATTTGCAGATACGCAGAGCAGTGAAATCAAAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatattttttttatattcaaccattgctaacaaaat--taaatattgataa---tgcatttactggatacttttatca---gtattattactttattagttctgt----
||| || || || || || || ||||| || || || ||||||||||||||||| ||  ||||||| || || |||||||| || ||| |||| |||||||||| | |  |   | || |  ||    || ||   | |  ||   ||| || |   | ||||     ||    ||  | |   || ||  || |  | |   | | |    
TCCAAAACAGGCGGTTTCAGTCTTTGCTGACACTCAAAGCAGTGAAATCAAAGACCGTGTATTTGACGAGTTTAACAGCCTTTCTGTGATATACCAGAAGgtatgtttcctgactttact--actgaagccaatgtagtagtatgcattcattagcctacattactcagaggtgttccttatatgttttcataataaaatgactttttgcag

upper sequence: LOC_Os01g43630.2 (Oryza sativa), 5'ss of exon 11
lower sequence: Vv04s0008g03880.t01 (Vitis vinifera), 5'ss of exon 9
TCCCAAGCAAGCTGTCTCTGTATTTGCAGATACGCAGAGCAGTGAAATCAAAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatat---attttttttatattcaaccattgctaacaaaattaaatattgataatgcatttactggatacttttatcagtattattactttattagttctgt-
||| ||||||||||| || || ||||||||||| || ||||||||| |||||||||| |||||||| ||||| ||||| ||||| || |||||||| |||||||||       ||| ||   |   |  ||  || | || |  | |  |||| ||  || |     ||| |||    |  |||| |  |  |||    |  | 
TCCAAAGCAAGCTGTTTCAGTCTTTGCAGATACTCAAAGCAGTGAAGTCAAAGATCGCATATTTGACGAATTTAACAGTCTATCTGTTGTATATCAAAAGgtatatcaagcggtttctaatcttttctttttgtagccaagt-gatttctgatcatcgatat-taacatagtttacctaaaattact--tccattgaaacaatt

upper sequence: LOC_Os01g43630.2 (Oryza sativa), 5'ss of exon 11
lower sequence: EFJ07665 (Selaginella moellendorffii), 5'ss of exon 8
TCCCAAGCAAGCTGTCTCTGTATTTGCAGATACGCAGAGCAGTGAAATCAAAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatattttttttatattcaaccattgctaacaaaattaaatattgataatgcatttactggatacttttatcagtattattactttattagttctgt
 || ||| | || |||||||  ||||||||||  || | ||||||||| | |||||| |||||||||||||||||||||||||| ||  | || |   ||||   |  || ||| |  ||   | |      | ||  |  | | ||   |                                                 
ACCAAAGAAGGCAGTCTCTGATTTTGCAGATATCCAAAACAGTGAAATGAGAGATCGAATATTTGATGAATTCAACAGCCTATCTGTCATCTACCGCGAGgtgagttgttatttgaagttt--ctaccatgtataacgtggactttttgcag------------------------------------------------

upper sequence: LOC_Os01g43630.2 (Oryza sativa), 5'ss of exon 11
lower sequence: EFJ07721 (Selaginella moellendorffii), 5'ss of exon 8
TCCCAAGCAAGCTGTCTCTGTATTTGCAGATACGCAGAGCAGTGAAATCAAAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatattttttttatattcaaccattgctaacaaaattaaatattgataatgcatttactggatacttttatcagtattattactttattagttctgt
 || ||| | || |||||||  ||||||||||  || | ||||||||| | |||||| |||||||||||||||||||||||||| ||  | || |   ||||      || ||| |  ||   | |      | ||| |  | | ||   |                                                 
ACCAAAGAAGGCAGTCTCTGATTTTGCAGATATCCAAAACAGTGAAATGAGAGATCGAATATTTGATGAATTCAACAGCCTATCTGTCATCTACCGCGAGgtgagctgttatttgaagttt--ctaccatgtataaagtggactttttgcag------------------------------------------------

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|66915427|gb|CX102275.1|CX102275
EST:     AAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAG                         CCATCTTACATGTTTACTGACAAGGAGCATCGTGGACCATTTGAGTACTCG
genomic: AAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatattt ... catttggcagCCATCTTACATGTTTACTGACAAGGAGCATCGTGGACCATTTGAGTACTCG
EST: gi|88330594|gb|CI635219.1|CI635219
EST:     TATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAG                         CCATCTTACATGTTTACTGACAAGGAGCATCGTGGACCATTTGAGTACTCG
genomic: TATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatattt ... catttggcagCCATCTTACATGTTTACTGACAAGGAGCATCGTGGACCATTTGAGTACTCG
EST: gi|58658699|gb|CK047379.1|CK047379
EST:     AAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAG                         CCATCTTACATGTTTACTGACAAGGAGCATCGTGGACCATTTGAGTACTCG
genomic: AAGATCGGATATTTGATGAATTCAACAGCCTATCAGTGGTATATCAGAAGgtatatattt ... catttggcagCCATCTTACATGTTTACTGACAAGGAGCATCGTGGACCATTTGAGTACTCG