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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACACCTCAAAGATGCTTCTAGCTGCTATTGATGAAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctagatttatttagtatgcaactaatacatcatatttgttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcag

Basic information

species Oryza sativa
transcript LOC_Os02g31290.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM5G814700_T01 (Zea mays), 5'ss of exon 2
GTACACCTCAAAGATGCTTCTAGCTGCTATTGATGAAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctagatttatttagtatgcaactaatacatcatatttgttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcag
||| ||||| ||||||||  | |||||||||||||||| |||||| || |||||||||||||||||| | |||||||| || |||||    |  |||||  |  ||          || |  |||| ||| |||    |||| ||  ||   ||||| |||| |||   ||   ||||||||
GTATACCTCCAAGATGCTCTTGGCTGCTATTGATGAAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAGgtagattgaatttaactcata----------accttgtattagttgagacta-cttgtctgctcatgttactaaatgagatcaatctc-cttttcag

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G459746_T01 (Zea mays), 5'ss of exon 12
GTACACCTCAAAGATGCTTCTAGCTGCTATTGATGAAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctaga--------tttatttagtatgcaactaatacatcatatttgttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcag
||| ||||| ||||||||  | |||||||||||||||| |||||| || |||||||| ||||||||| | |||||||| || |||||  | |  |        ||||  |  || || ||     | |  |||| ||| |||     ||   |  ||   ||||| |||| |||   ||   ||||||||
GTATACCTCCAAGATGCTCTTGGCTGCTATTGATGAAAGTCATAAGGGCACTTATGACTTTATTTACTTGCCAATTGATTTTAAGgtagtttgaaactttgaatttaactcataagcgaccggggccttgtattagttgagactacttt-tgtgttcatgttactaaatgagatcaatctc-cttttcag

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA08G28860.1 (Glycine max), 5'ss of exon 4
GTACACCTCAAAGATGCTTCTAGCTGCTATTGATGAAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtga---tctagatttatttagtatgcaactaatacatcat--atttgtt-cagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcag
||| || || ||||||||  ||||||| |||||||||   |||| ||| |||||||||||| |||| || |||||||| ||||  |  |     |   | | ||||  || |    | |  ||  |  |||||||  | | ||  |  | |  | |||    |  || | |  |   ||  |||    
GTATACATCCAAGATGCTGTTAGCTGCAATTGATGAACGCCATAGAGGAACTTATGATTTTGTTTATCTGCCAATTGATTTCAGAgcaagtgcttttctctttttaaaatacttggagtttatggtccatttgttgtatagagaatatctttctagaaaatatttattgtactttctctgttttg---

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 12
lower sequence: AT5G61960.2 (Arabidopsis thaliana), 5'ss of exon 11
GTACACCTCAAAGATGCTTCTAGCTGCTATTGATGAAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctagatttatttagtatgcaactaatacatcatatttgttcagatagtcttgcctaatcgaattactgaatgg-gatgtgtcctacttttcag------------
|||||| || |||||||||||| |||||||||| ||  ||  |||||| |||||||||||  ||||  | ||||||||||||||||  | |  |  |  |    | |  |  ||| | |   |  ||   |||| |        |  | | |||    |||   ||| |   ||| | ||               
GTACACTTCGAAGATGCTTCTATCTGCTATTGACGAGCATTGTAAAGGAACTTATGATTTCCTTTATTTGCCAATTGACTTCAAGgcaagcaggcgtcctaccttttttatataagaaagtcttattaagcagacacgtagaggttttggtattttgcaataacgatctaatctaatcttaccctgtcatttcag

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 12
lower sequence: AT5G07290.1 (Arabidopsis thaliana), 5'ss of exon 11
GTACACCTCAAAGATGCTTCTAGCTGCTATTGATGAAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctagatt--tatttagtatg-caactaataca-tcatatttgttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcag-----
||| || || |||||||| |||||||||||||||||  |   |||||| || ||||||||| ||||  | |||||||||||||||||   |  |  |  ||  |  | |  || |||||  | ||  ||     |  ||||  | |  || |      |  ||     |||   | | ||| |        
GTATACTTCTAAGATGCTCCTAGCTGCTATTGATGAGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggcctcttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtattttctacatcgatataaatgaaccttccttctatttgcag

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv17s0000g00240.t01 (Vitis vinifera), 5'ss of exon 12
GTACACCTCAAAGATGCTTCTAGCTGCTATTGATGAAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctagatttatttagtatgcaactaat----acatcatatttgttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcag
||| || ||||| |||||||| ||||| ||||||||| |||||  ||| |||||||||||||||||  | |||||||||||||| || |   |   ||   | |  || |  |  |      |  | ||    |  || |      | ||   || |  |    | | |  |   ||  ||| |||
GTATACTTCAAAAATGCTTCTTGCTGCAATTGATGAACATCATCGAGGAACTTATGATTTTATTTATTTGCCAATTGACTTCAAAgtaagtaaatcttgcatggattgaatttctttggggaagaaaatcacatatgacatatgcacatatctgattcgcctttttgcaaat--tctgttttgcag

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|58687890|gb|CK076577.1|CK076577
EST:     AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAG                         AACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
genomic: AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctaga ... tacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
EST: gi|58691922|gb|CK080609.1|CK080609
EST:     AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAG                         AATAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
genomic: AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctaga ... tacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
EST: gi|58657140|gb|CK045820.1|CK045820
EST:     AAATCATAAAGGGACTTATGATTTTATTTACCTACGGAGTGGACTTCAAG                         AACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
genomic: AAATCATAAAGGGACTTATGATTTTATTTACCTAC-CAATTGACTTCAAGgtgatctaga ... tacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
EST: gi|56158059|gb|C72031.2|C72031
EST:     AAAATCATAAAGGGACTTATGATTTTNTTTACCTACCAATTGACTTCAAG                         AACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
genomic: AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctaga ... tacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
EST: gi|66930475|gb|CX117323.1|CX117323
EST:     AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAG                         AACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT
genomic: AAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctaga ... tacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCAT