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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtgtaaattcttttttcttacagtggaatcagaatcggtagcttaaaattcttgataaatgagttgatcgttgcgtgcatttgtgggtgtaaataaatttgaaaaattaattcagGTGTGAGCAAGGACGGGCTGGTGAGGCACTTCTTCCACCGGCCGTCGAAGGCGTACACGACGGGGACGAGGAAGCGGCGGAAGGTGCACAGCGACGAGGT

Basic information

species Oryza sativa
transcript LOC_Os05g48850.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g48850.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G031200_T02 (Zea mays), 3'ss of exon 2
gtgggtgtaaattcttttttcttacagtggaatcagaatcggtagcttaaaattcttgataaatgagttgatcgttgcgtgcatttgtgggtgtaaataaatttgaaaaattaattcagGTGTGAGCAAGGACGGGCTGGTGAGGCACTTCTTCCACCGGCCGTCGAAGGCGTACACGACGGGGACGAGGAAGCGGCGGAAGGTGCACAGCGACGAGGT
      |||  | |           ||   |||     ||| | | ||   ||      |   || ||  |||  ||| |||||  |  | | ||   |   |       ||  |||||||||||||||||||||||| ||  |||||||||||||||||||||| | |||||||||||||||||||||||||||||||||||||||||||| ||| | 
------gtacgtacgcaccgtacgtagcttaattt---tcgctggtttcggatc-----tgcgtgcgtgcatccatgcatgcat--gatgatctaccgacgatgtgctggtt--ttcagGTGTGAGCAAGGACGGGCTTGTTCGGCACTTCTTCCACCGGCCGTCCAGGGCGTACACGACGGGGACGAGGAAGCGGCGGAAGGTGCACAGCGGCGACGA

upper sequence: LOC_Os05g48850.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AC201894.4_FGT007 (Zea mays), 3'ss of exon 2
gtgggtgtaaattcttttttcttacagtggaatcagaatcggtagcttaaaattcttgataaatgagttgatcgttgcgtgcatttgtgggtgtaaataaatttgaaaaattaattcagGTGTGAGCAAGGACGGGCTGGTGAGGCACTTCTTCCACCGGCCGTCGAAGGCGTACACGACGGGGACGAGGAAGCGGCGGAAGGTGCACAGCGACGAGGT
                 |      | || |  | |   ||| | | || | ||      |   || ||  |||  |   |     ||  | | ||   |  ||       |   |||||||||||||||||||||||| ||  |||||||||||||||||||||| | |||||||||||||||||||||||||||||||||||||||||||| ||| | 
----------------gtacgcacccgtagcttaattttcgctggtttcagatc-----tgcgtgcgtgcatccatatatatgcatgatgatctaccgacgtt---gtgctggtttcagGTGTGAGCAAGGACGGGCTTGTCCGGCACTTCTTCCACCGGCCGTCCAGGGCGTACACGACGGGGACGAGGAAGCGGCGGAAGGTGCACAGCGGCGACGA

upper sequence: LOC_Os05g48850.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT4G28500.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgggtgtaaattcttttttcttacagtggaatcagaatcggtagcttaaaattcttgataaatgagttgatcgttgcgtgcatttgtgggtgtaaataaatttgaaaaattaattcagGTGTGAGCAAGGACGGGCTGGTGAGGCACTTCTTCCACCGGCCGTCGAAGGCGTACACGACGGGGACGAGGAAGCGGCGGAAGGTGCACAGCGACGAGGT
   | || ||||| |     | || ||   ||  | |    |    |  || ||||| ||   | | || |  |||   || ||         ||| ||    |  || |   ||  ||| |||| ||||||||||  |||| | || ||||||||||| ||||||||||| ||||||||||| || || ||||| || || || ||||  ||    | 
--cgatggaaattgt-----catatagaaaaagaaaatgtagctaatccaatttcttaat---taaattaa--gtttgatgaatgc-------taattagtcgttgaatacatatatagGAGTGAACAAGGACGGGACGGTGCGTCATTTCTTCCACCGACCGTCGAAGGCATACACGACGGGAACAAGAAAGCGACGTAAAGTCCACACTGATTCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagttgatcgttgcgtgcatttgtgggtgtaaataaatttgaaaaattaattcagGTGTGAGCAAGGACGGGCTGGTGAGGCACTTCTTCCACCGGCCGTCGAAGGCGTACACGACGGGGACGAGGAAGCGGCGGAAGGTGCACAGCGACGAGGT
                                            aattaat  putative branch site (score: 3)
                           tgtaaataaatttgaa  TA-rich tract