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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acacccataaaacctggaaattttgttttgactaggtaatgtatttatatttacttaatgcaataaatggaggctgattggtatatgctgctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGGACAATAAATTGGATTTTTGATTTTCTAGTTTTACCAAAATTATATTTTA

Basic information

species Oryza sativa
transcript LOC_Os01g44310.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g44310.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA02G06160.1 (Glycine max), 3'ss of exon 14
--acacccataaaacctggaaattttgttttgactag-gtaatgtatttatatttacttaatgcaataaatggaggctgattggtatatgctgctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGGACAATAAATTGGATTTTTG--ATTTTCTAGTTT--TACCAAAATTATATTTTA
   || |  ||   | ||||  || |   |||| ||   | ||  |  | |  ||  ||       |   |      |  || |  |    | | |||| ||||| || |||||||||||||| || ||||||||||||| |    |||   |      ||  ||    ||||  |      || |   | ||  |   || |    
gagcatct-tagtccttggactttattaattgattattatgatcgacctctcatt--ttgtctttctttgttttcctttctttgcctccttttcaatatccagGAAGCTTGGAACAAATTCAACTCAGAAGAGCGATAGCACACACTGTTCTGTTTTTGAACATGTCCCTTTGCAAGAGAGCAGCTCCCTTCCCTAGCAATGT----

upper sequence: LOC_Os01g44310.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA16G25190.1 (Glycine max), 3'ss of exon 9
acacccataaaacctggaa-attttgtttt---gactaggtaatgtatttatatttacttaatgcaataaatggaggctgattggtatatgctgctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGGACAATAA-ATTGGATTTTTGATTTTCTAGTTTTACCAAAATTATATTTTA
     ||     | ||||  || ||  |     ||||   | ||| |       ||| ||  ||   |   | |       ||  |     || | |||| ||||| || |||||||||||||| || ||||||||||||| |    |||   |     ||| |||    |||  |         ||  |  |  |   | | | 
--gttcaagttgcatggagcatcttagtccatagactttattatgaacgacctcttattt--tggctttctttgttttgcttttttccccccttcaatatccagGAAGCTTGGAACAAATTCAACTCAGAAGAGCGATAGCACACACTGTTCTGTTTTTTAACATTCCCCTTTGCAAGAGAGCAGTTCCCTTACCTAGCAATAT-
















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|58680897|gb|CK069584.1|CK069584
EST:     CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAG                         GAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
genomic: CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatt ... ctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
EST: gi|38480580|gb|CF964669.1|CF964669
EST:     TTTGTGAGAAGGTG-TTGATCTTCTTAAG                         GAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
genomic: TTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatt ... ctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
EST: gi|29617071|gb|CB622083.1|CB622083
EST:     CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAG                         GAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
genomic: CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatt ... ctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
EST: gi|58589020|gb|CF987328.1|CF987328
EST:     CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAG                         GAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
genomic: CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatt ... ctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
EST: gi|29621424|gb|CB626435.1|CB626435
EST:     CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAG                         GAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG
genomic: CTACAATCAGACAGAAATATATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtacattatt ... ctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatttacttaatgcaataaatggaggctgattggtatatgctgctatatgcagGAGGCATGGAACAAATTCAATTCCGAAGAGCGATAGCTCGGGATGTAGGGGACAATAAATTGGATTTTTGATTTTCTAGTTTTACCAAAATTATATTTTA
                          ggctgat  putative branch site (score: 4)
         ttaatgcaataaat  TA-rich tract