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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcatcagctcagatcgttggcgaatttcggctttgatttttggtcgctgctgatatagatgcgaactaatttgggtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGACACGGGGCCGCTCGTCTACCCGGCCGGCTTCCTCTACGTTTACTCCGCCA

Basic information

species Oryza sativa
transcript LOC_Os01g07720.4
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g07720.4 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G066362_T02 (Zea mays), 3'ss of exon 2
----------------------------------gtatcatcagctcagatcgttggcgaatttcggctttgatttttggtcgctgctgatatagatgcgaactaatttggg-----tgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGACACGGGGCCGCTCGTCTACCCGGCCGGCTTCCTCTACGTTTACTCCGCCA
                                  || ||  | |||    | |||   || |||||  ||||   |   |  |         | |  |    ||  | || |     ||||  | ||||||||| ||| |||| ||||||||||| ||||||||||||||||| ||||| |||||  | |||||||||||||| ||||||||||| ||||||||| 
gtgctagcgcaattggggagcctttttttttatcgtttcccc-gctgttttggttcaagagtttcgaatttgggatggtggtgtgatcttggttggcggctgctggtgtgtgcttcctgcgcta-gGTGGACGCTTTTCTGGAGGGGGAGAGGGACTACACCAAGATCGAGGGAGACACAGGGCCATTGGTCTACCCGGCCGGATTCCTCTACGTCTACTCCGCCG
















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|88740960|gb|CI764468.1|CI764468
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATAACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88765491|gb|CI774585.1|CI774585
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88734598|gb|CI758106.1|CI758106
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88312323|gb|CI582661.1|CI582661
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88576279|gb|CI670424.1|CI670424
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88309854|gb|CI656988.1|CI656988
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88763364|gb|CI772825.1|CI772825
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88592824|gb|CI710953.1|CI710953
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88449328|gb|CI582200.1|CI582200
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88327935|gb|CI648334.1|CI648334
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88763578|gb|CI773025.1|CI773025
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88741433|gb|CI764941.1|CI764941
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|38472084|gb|CF956215.1|CF956215
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88368729|gb|CI645151.1|CI645151
EST:     ATACCAAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTNTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|87008978|gb|CI304921.1|CI304921
EST:     ATACCAAGATCGACTGGGACGCGTACATAGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: ATACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
EST: gi|88337341|gb|CI629631.1|CI629631
EST:     ATTAC-AAGATCGACTGGGACGCGTACATGGCTCAG                         GTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC
genomic: AT-ACCAAGATCGACTGGGACGCGTACATGGCTCAGgtatcatcag ... gtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttgatttttggtcgctgctgatatagatgcgaactaatttgggtgcgagaagGTGGACGCGTTTGTGGAAGGGGAGAGGGATTACACCAAGATCGAGGGCGACACGGGGCCGCTCGTCTACCCGGCCGGCTTCCTCTACGTTTACTCCGCCA
                                  aactaat  putative branch site (score: 2)
                                  aactaattt  TA-rich tract