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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgactttattttctctataacataatttcccctgtaagattttcatagacttatactgtggtttgcaatttgaagGATTATGTGGCAACAAGGTGGTACCGAGCTCCTGAATTATGTGGTTCTTTTTTCTCCAAA

Basic information

species Oryza sativa
transcript LOC_Os02g04230.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g04230.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G374088_T01 (Zea mays), 3'ss of exon 3
gtacgactttattttctctataacataatt--tcccctgtaagattttcatagactta--tactgtggtttgcaatttgaagGATTATGTGGCAACAAGGTGGTACCGAGCTCCTGAATTATGTGGTTCTTTTTTCTCCAAA
||| ||   | ||   || ||    || |   ||   | |  |    | ||    |||  || ||||  |||||| |||||||||||||| ||||||||||||||||| ||||||||||||||||| || ||||||||||  
gtaagatcct-ttccatcaattttgtattcaatcatttttttgccccttatttcattaactattgtg-cttgcaacttgaagGATTATGTCGCAACAAGGTGGTACCGGGCTCCTGAATTATGTGGCTCCTTTTTCTCCAGT

upper sequence: LOC_Os02g04230.2 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S80_71V6.2 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------------------------gtacgactttattttctctataacataatttccc---ctgtaagattttcatagacttatactgtggtttgcaatttgaagGATTATGTGGCAACAAGGTGGTACCGAGCTCCTGAATTATGTGGTTCTTTTTTCTCCAAA
                                                                           | |||     | |||      |  | || |||     ||||   |  | |||  | |    |||| ||| |  | || | |||||||||||| ||||||||||| |||||||| ||  | |||||||| || || || || 
gtatggtcttccgccattgctggaaattaaaaatattataggttctcggaaaccattgttattaagtccttctaggcacggtcaaactttactgccaggaaaagttctgaagctgtgtaacctgcatgaatt----ctgttgttgggtacttca-gGATTATGTGGCTACAAGGTGGTATCGAGCTCCAGAGCTTTGTGGTTCATTCTTTTCGAAG

upper sequence: LOC_Os02g04230.2 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------------------------gtacgactttattttctctataacataatttcccctgtaagattttcatagacttatactgtg---gtttgcaatt--tga-------agGATTATGTGGCAACAAGGTGGTACCGAGCTCCTGAATTATGTGGTTCTTTTTTCTCCAAA
                                                                            |   ||| ||   |||   | | ||  | ||    |||   |||| |     ||||| | ||    | | | |||  |||       ||||||||||||| ||||||||||| |||||||| ||  |||||||||| || || || || 
gtatggtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcagGATTATGTGGCCACAAGGTGGTATCGAGCTCCGGAGCTATGTGGTTCATTCTTTTCTAAG

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|58655691|gb|CK044371.1|CK044371
EST:     GACTTGCACGTGTAGCATTTAATGATTCACCTTCAACAATTTTTGGGACC                         GATTATGTGGCAACAAGGTGGTACCGAGCTCCTGAATTATGTGGTTCTTTT
genomic: GACTTGCACGTGTAGCATTTAATGATTCACCTTCAACAATTTTTTGGACCgtacgacttt ... caatttgaagGATTATGTGGCAACAAGGTGGTACCGAGCTCCTGAATTATGTGGTTCTTTT
EST: gi|33677513|gb|CF305752.1|CF305752
EST:     GACTTGCACGTGTAGCATTTAATGATTCACCTTCAACAATTTTTTGGACC                         GATTATGTGGCAACAAGGTGGTACCGAGCTCCTGAATTATGTGGTTCTTTT
genomic: GACTTGCACGTGTAGCATTTAATGATTCACCTTCAACAATTTTTTGGACCgtacgacttt ... caatttgaagGATTATGTGGCAACAAGGTGGTACCGAGCTCCTGAATTATGTGGTTCTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cataatttcccctgtaagattttcatagacttatactgtggtttgcaatttgaagGATTATGTGGCAACAAGGTGGTACCGAGCTCCTGAATTATGTGGTTCTTTTTTCTCCAAA
              taagatttt  TA-rich tract