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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcgtctcttttgcactgatctactcataataaaaaatgttctcttatgtttatatgacgtctaactgtggagccccaccttttttcagGTCGCCATCTTACTTCTTACAGAAATCACACCCAAAAGTGTTGCAGTTCATAATGCTACAGAGGTTGCTAGGTTTGTTGTAAG

Basic information

species Oryza sativa
transcript LOC_Os03g39640.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g39640.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 3
----gtatgtcgtctcttttgcactgatctactcataataaaaa-atgttc--tcttatgtttatatgacgtctaactgtggagccccaccttttttcagGTCGCCATCTTACTTCTTACAGAAATCACACCCAAAAGTGTTGCAGTTCATAATGCTACAGAGGTTGCTAGGTTTGTTGTAAG
      |||| ||         |    |||   |||  | |    |||     |   |||||  |     | | || | |     |||    |  | ||||| || || || ||||| || ||||| || || |||||  | || || |||||||| ||||||||||||||||||||      
ggactcatgtagtggacaacatatgcttcttgccatggttattttatgccaaatgcaatgttctttacttgaccaaattttttttccctgaatgatccagGTTGCAATTTTGCTTCTCACTGAAATTACTCCAAAAAGCCTAGCTGTCCATAATGCCACAGAGGTTGCTAGGTTTGTG-----
















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|29634884|gb|CB639893.1|CB639893
EST:     CTGCAATGTTTGGTGAAGCAGGTGTCAGTGCAGCAACAGGCGTCATGACT                         GTCGCCATCTTACTTCTTACAGAAATCACACCCAAAAGTGTTGCAGTTCAT
genomic: CTGCAATGTTTGGTGAAGCAGGTGTCAGTGCAGCAACAGGCGTCATGACTgtatgtcgtc ... cttttttcagGTCGCCATCTTACTTCTTACAGAAATCACACCCAAAAGTGTTGCAGTTCAT
EST: gi|29634823|gb|CB639832.1|CB639832
EST:     CTGCAATGTTTGGTGAAGCAGGTGTCAGTGCAGCAACAGGCGTCATGACT                         GTCGCCATCTTACTTCTTACAGAAATCACACCCAAAAGTGTTGCAGTTCAT
genomic: CTGCAATGTTTGGTGAAGCAGGTGTCAGTGCAGCAACAGGCGTCATGACTgtatgtcgtc ... cttttttcagGTCGCCATCTTACTTCTTACAGAAATCACACCCAAAAGTGTTGCAGTTCAT
EST: gi|29634802|gb|CB639811.1|CB639811
EST:     CTGCAATGTTTGGTGAAGCAGGTGTCAGTGCAGCAACAGGCGTCATGACT                         GTCGCCATCTTACTTCTTACAGAAATCACACCCAAAAGTGTTGCAGTTCAT
genomic: CTGCAATGTTTGGTGAAGCAGGTGTCAGTGCAGCAACAGGCGTCATGACTgtatgtcgtc ... cttttttcagGTCGCCATCTTACTTCTTACAGAAATCACACCCAAAAGTGTTGCAGTTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatgttctcttatgtttatatgacgtctaactgtggagccccaccttttttcagGTCGCCATCTTACTTCTTACAGAAATCACACCCAAAAGTGTTGCAGTTCATAATGCTACAGAGGTTGCTAGGTTTGTTGTAAG
                         gtctaac  putative branch site (score: 2)
                                       ccccaccttttttc  putative PPT
        tcttatgtttatat  TA-rich tract