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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataacccaaaataatggcaactttgtttagagaaggtacatcgtctaagtgttttaatggtataatctgatatatttactgtgttggacttttagGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATGCAACACAGCCAATGTTTCACAGTCAGGGAAAACAAGCCGTAGGTTCTAC

Basic information

species Oryza sativa
transcript LOC_Os12g06630.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g06630.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G001272_T01 (Zea mays), 3'ss of exon 4
gtaataacccaaaataatggcaactttgtttagagaa--ggtacatcgtctaagtgttttaatggtataatctgatatatttactgtgttggactttta--gGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATGCAACACAGCCAATGTTTCACAGTCAGGGAAAACAAGCCGTAGGTTCTAC---------
 | ||  |        |   ||    |||          || ||   ||||     |||| ||| ||| | || |||||| ||  |  ||| || | ||  |||| ||||| ||||| |||||||||| ||||||||||||||| || ||||||||  ||||         | |  | ||||||||||||||| ||||||||         
tttattccttccccagactccactcatgtgggagcttccggcactgggtctgtccctttttatg-tatca-ctaatatatctatggcattgaacatctatagGTCGAATCTCCTCGGCACAAAGTTTGCAATATATGATACCCAGCCCCCATGCAATGCAGC---------AGAACCCGGGAAAACAAGCCGTCGGTTCTACTCCCGGAAG
















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|33381574|gb|CF196917.1|CF196917
EST:     AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAG                         GTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
genomic: AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAGgtaataaccc ... ggacttttagGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
EST: gi|33810127|gb|CF330953.1|CF330953
EST:     AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAG                         GTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
genomic: AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAGgtaataaccc ... ggacttttagGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
EST: gi|58672719|gb|CK061405.1|CK061405
EST:     AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAG                         GTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
genomic: AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAGgtaataaccc ... ggacttttagGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
EST: gi|570076|gb|D40925.1|D40925
EST:     GCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAG                         GTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
genomic: GCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAGgtaataaccc ... ggacttttagGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
EST: gi|58692203|gb|CK080890.1|CK080890
EST:     TGGAAAATTGAG                         GTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
genomic: TGGAAAATTGAGgtaataaccc ... ggacttttagGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
EST: gi|38473160|gb|CF957292.1|CF957292
EST:     AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAG                         GTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
genomic: AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAGgtaataaccc ... ggacttttagGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
EST: gi|58680304|gb|CK068991.1|CK068991
EST:     AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAG                         GTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
genomic: AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAGgtaataaccc ... ggacttttagGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
EST: gi|11170889|gb|AU163519.1|AU163519
EST:     AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAG                         GTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG
genomic: AGTGCTGACAATACATCTAGGTCAAGCAACATGTACATTGGAAAATTGAGgtaataaccc ... ggacttttagGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgtctaagtgttttaatggtataatctgatatatttactgtgttggacttttagGTCAAATCTTCTCGGAACAAAGTTTGTAATATATGATACCCAACCTCCATGCAACACAGCCAATGTTTCACAGTCAGGGAAAACAAGCCGTAGGTTCTAC
                                                ctttt  CT-rich tract
           ttttaatggtataatc  TA-rich tract