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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCGGTGGAAGGCGATGCTGATGCCAATGATCCTGGGAAAGAATGTGTTATTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATGgtaagtatccgatttgtgtattgactagttcatgtgcagcattaggggtccatgatcaagttaaataaagctacaaagttattctgtttctaaaaccata...

Basic information

species Oryza sativa
transcript LOC_Os03g15000.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g15000.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G426140_T01 (Zea mays), 5'ss of exon 14
CTCGGTGGAAGGCGATGCTGATGCCAATGATCCTGGGAAAGAATGTGTTATTTGCCTCTCGGAG-CCAAGGGATACTACCGTTCTCCCATGTAGGCATATGgtaagtatccgatttgtgtattgactagttcatgtgcagcattaggggtccatgatcaagttaaataaagctacaaagttattctgtttctaaaaccata--
 || |||||||| ||||||||||| |||||||| |||||||||||||||||||||||||| ||  |||||||||||||| || |||||||||||||||||||||||||| |      | | |  |  | | ||| |       |||      ||| || | ||  |   | ||    |    || |  || |   || ||   
-TCCGTGGAAGGTGATGCTGATGCAAATGATCCAGGGAAAGAATGTGTTATTTGCCTCTCAGAAACCAAGGGATACTACTGTCCTCCCATGTAGGCATATGgtaagtatgctggcaatctttcaaggattgcattttt--ttgtagaaactaatgctctatttttaagtaacttggtataagttttcattatttgactatgtt

upper sequence: LOC_Os03g15000.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM5G860152_T02 (Zea mays), 5'ss of exon 2
CTCGGTGGAAGGCGATGCTGATGCCAATGATCCTGGGAAAGAATGTGTTATTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATGgtaagtatccgatttgtgtattgactagtt-catgtgcagcattaggggtccatgatcaagtt---aaataaagctacaaagttattctgtttctaaaaccata
||| |||||||| ||||||||||| |||||||| |||||||||||||||||||||||||| || |||||||||||||| || |||||||||||||||||||||||||| |      | |||| |    || ||| |       |||      ||| |||| ||   || |||      | |  | |||  | | | |  | |  
CTCCGTGGAAGGTGATGCTGATGCAAATGATCCAGGGAAAGAATGTGTTATTTGCCTCTCAGAACCAAGGGATACTACTGTCCTCCCATGTAGGCATATGgtaagtatgctggcaatctattcaaggattgcatttttttttgtagaaactaatgctcaatttttgaagtaacttggtataagttttcattatttga--cta--

upper sequence: LOC_Os03g15000.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G036697_T01 (Zea mays), 5'ss of exon 2
CTCGGTGGAAGGCGATGCTGATGCCAATGATCCTGGGAAAGAATGTGTTATTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATGgtaagtatccgatttgtgtatt----gactagttcatgtgcagcattaggggtccatgatcaagt--taaataaagcta-caaagttattctgtttctaaaaccata
|||  ||||||| ||||||||||| |||||||| |||||||||||||||||||||||||| || |||||||||||||| || || ||||||||||||||||||||| | |   |  | ||||    || |   |  ||||      |||      | |||| | |  | || |||  |   | |  | |||  | | |||       
CTCCATGGAAGGTGATGCTGATGCAAATGATCCAGGGAAAGAATGTGTTATTTGCCTCTCAGAACCAAGGGATACTACTGTCCTGCCATGTAGGCATATGgtaagtctgctggtaatctattcaaggattgcattttgtgtgtgtgtagaaactaacgatctattcttgaagaaacttggtataagttttcattatttaa-------

upper sequence: LOC_Os03g15000.1 (Oryza sativa), 5'ss of exon 2
lower sequence: AT3G09770.1 (Arabidopsis thaliana), 5'ss of exon 2
CTCGGTGGAAGGC---GATGCTGATGCCAATGATCCTGGGAAAGAATGTGTTATTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATGgtaagtatccgatttgtgtattgactagttcatgtgcagcattaggggtccatgatcaagttaaataaagctacaaagttattctgtttctaaaaccata
   ||  || |     | || |||||| ||||||||||| |||||||||||||| ||  | || || ||| | || || || ||||| |||||| | ||||||||||||     |  ||   ||| |||| |   | ||      | |   |  ||    | |||||| |  | |      |  |  ||              
---GGATGATGATTCAGCTGATGATGCTAATGATCCTGGTAAAGAATGTGTTATATGTTTGTCTGAACCACGAGACACCACTGTTCTTCCATGTCGACATATGgtaagtg--aaagctgatgatttactactat-tatgtgatgatggacatatatatagatgttaaaaattgtttgggtttggtggtgcag-----------

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|86828499|gb|CI278607.1|CI278607
EST:     TCCCATGTAGGCATATG                         TGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
genomic: TCCCATGTAGGCATATGgtaagtatcc ... tctggtacagTGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
EST: gi|86859202|gb|CI277093.1|CI277093
EST:     TTGCCTCTCGGAGCCAAGGGATAACTACCGTTCTCCCATGTAGGCATATG                         TGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
genomic: TTGCCTCTCGGAGCCAAGGGAT-ACTACCGTTCTCCCATGTAGGCATATGgtaagtatcc ... tctggtacagTGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
EST: gi|86855802|gb|CI271021.1|CI271021
EST:     TTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATG                         TGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
genomic: TTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATGgtaagtatcc ... tctggtacagTGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
EST: gi|218498901|gb|FG944514.1|FG944514
EST:     TTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATG                         TGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGAACCGGTGC
genomic: TTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATGgtaagtatcc ... tctggtacagTGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
EST: gi|218501166|gb|FG964612.1|FG964612
EST:     TTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATG                         TGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
genomic: TTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATGgtaagtatcc ... tctggtacagTGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
EST: gi|86499438|gb|CI142071.1|CI142071
EST:     TTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATG                         TGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
genomic: TTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATGgtaagtatcc ... tctggtacagTGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
EST: gi|58663479|gb|CK052165.1|CK052165
EST:     TTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATG                         TGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC
genomic: TTTGCCTCTCGGAGCCAAGGGATACTACCGTTCTCCCATGTAGGCATATGgtaagtatcc ... tctggtacagTGTATGTGCAGCGAGTGTGCCAAGGTCCTGAGGTACCAGACGACCCGGTGC