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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcatttcttaccacctcaattggacactgaagctctgttagtttagttagtttttagatatctgaatgaatatcctgtagGTTGCGCTTAAATTTGAGCACCGAAGCAGTAAAGGATGTAACTATGGCCCTCCATACGAGTGGCAGGTTTACCAGTAAGAATTTCACACAATCTATCCCT

Basic information

species Oryza sativa
transcript LOC_Os03g57940.4
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g57940.4 (Oryza sativa), 3'ss of exon 3
lower sequence: EDO97462 (Chlamydomonas reinhardtii), 3'ss of exon 2
gtttcatttcttaccacctcaattggacactgaagctctgttagtttagttagttt-ttagatatctgaatgaatatcctgtagGTTGCGCTTAAATTTGAGCACCGAAGCAGTAAAGGATGTAACTATGGCCCTCCATACGAGTGGCAGGTTTACCAGTAAGAATTTCACACAATCTATCCCT
             | |  |   ||| || |||  | | || ||||  |   |  |  | || | | ||         |  | |||| ||  | |||||||||||||| ||||||||||| || |||||||| || || |||||||||   || ||| |                          
--------gtcagcaagattgtttgaaccctg--gttttgctagtccacgaaactaatcagctctttg---------cgcgcagGTGGCTTTAAAATTTGAGCACCGCAGCAGTAAAGGCTGCAACTATGGGCCCCCCTACGAGTGGTCCGTGTACAA--------------------------

upper sequence: LOC_Os03g57940.4 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ38433 (Selaginella moellendorffii), 3'ss of exon 2
gtttcatttcttaccacctcaattggacactgaagctctgttagtttagttagtttttagatatctgaatgaatatcctgt-agGTTGCGCTTAAATTTGAGCACCGAAGCAGTAAAGGATGTAACTATGGCCCTCCATACGAGTGGCAGGTTTACCAGTAAGAATTTCACACAATCTATCCCT
               |      | | | | |   |||| ||| | || | |  ||| |      ||||   || ||  ||| |||||||  | || ||||| ||| |||||||||||||||| |||||||| ||||| || |||||||| ||||||                            
-------------gtagactgttcgaagatt--tgctcagttggattggctcttttctcagcggctgatcaaagatgttgtcagGTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACAC--------------------------

upper sequence: LOC_Os03g57940.4 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ31718 (Selaginella moellendorffii), 3'ss of exon 2
gtttcatttcttaccacctcaattggacactgaagctctgttagtttagttagtttttagatatctgaatgaatatcctgt-agGTTGCGCTTAAATTTGAGCACCGAAGCAGTAAAGGATGTAACTATGGCCCTCCATACGAGTGGCAGGTTTACCAGTAAGAATTTCACACAATCTATCCCT
               |      | | | | |    ||| ||| | || | |  ||| |      ||||   || ||  ||| |||||||  | || ||||| ||| |||||||||||||||| |||||||| ||||| || |||||||| ||||||                            
-------------gtagactgttcgaagatttt--ctcagttggatt-gctcttttctcagcggctgatcaaagatgttgtcagGTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACAC--------------------------

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|117246415|gb|CT843264.1|CT843264
EST:     GTCGAAGAGTATCTGGTGGAGGTTCTCGCACGGGTCCAGATGCGCAAGAG                         GTTGCGCTTAAATTTGAGCACCGAAGCAGTAAAGGATGTAACTATGGCCCT
genomic: GTCGAAGAGTATCTGGTGGAGGTTCTCGCACGGGTCCAGATGCGCAAGAGgtttcatttc ... tatcctgtagGTTGCGCTTAAATTTGAGCACCGAAGCAGTAAAGGATGTAACTATGGCCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgaagctctgttagtttagttagtttttagatatctgaatgaatatcctgtagGTTGCGCTTAAATTTGAGCACCGAAGCAGTAAAGGATGTAACTATGGCCCTCCATACGAGTGGCAGGTTTACCAGTAAGAATTTCACACAATCTATCCCT
                tttagttagttttta  TA-rich tract