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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaggcatgccttttacttcatatgtgtttagtttgtcaaccaagaaataggtgttacatgaacattttctcgcctttagGTTGATGCTTTCCCTGGTGATGCAATTATATTCATGAGGGTTTTGAATCTTCTTAGAG

Basic information

species Oryza sativa
transcript LOC_Os06g48770.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g48770.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G140917_T01 (Zea mays), 3'ss of exon 12
gtgagtaggcatgccttttacttcatatgtgtttagtttgtcaaccaagaaatagg-tgttacatgaacattttctcgcctttagGTTGATGCTTTCCCTGGTGATGCAATTATATTCATGAGGGTTTTGAATCTTCTTAGAG
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gtgagttggaatgtcta--gcttgctacttttcagtttccacagccaattgatggggtgtcacatggacattttcatgcttttagGTTGATGCTTTCCCCGGGGATGCCATAATATTTATGAGGGTCTTGAATCTCCTCAGAG
















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|58606319|gb|CK034352.1|CK034352
EST:     GGAGGTTCAACGTTTCAATCCA                         GTTGATGCTTTCCCTGGTGATGCAATTATATTCAGGGGGGTTTTGAATCTT
genomic: GGAGGTTCAACGTTTCAATCCAgtgagtaggc ... tcgcctttagGTTGATGCTTTCCCTGGTGATGCAATTATATTCATGAGGGTTTTGAATCTT
EST: gi|29679895|gb|CB676170.1|CB676170
EST:     TTCAAGAAAAGATGAAAATGAATAAAAAGGAGGTTCAACGTTTCAATCCA                         GTTGATGCTTTCCCTGGTGATGCAATTATATTCATGAGGGTTTTGAATCTT
genomic: TTCAAGAAAAGATGAAAATGAATAAAAAGGAGGTTCAACGTTTCAATCCAgtgagtaggc ... tcgcctttagGTTGATGCTTTCCCTGGTGATGCAATTATATTCATGAGGGTTTTGAATCTT
EST: gi|87005733|gb|CI316152.1|CI316152
EST:     TCAACGTTTCAATCCA                         GTTGATGCTTTCCCTGGTGATGCAATTATATTCATGA-GGTTTTGAATCTT
genomic: TCAACGTTTCAATCCAgtgagtaggc ... tcgcctttagGTTGATGCTTTCCCTGGTGATGCAATTATATTCATGAGGGTTTTGAATCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttagtttgtcaaccaagaaataggtgttacatgaacattttctcgcctttagGTTGATGCTTTCCCTGGTGATGCAATTATATTCATGAGGGTTTTGAATCTTCTTAGAG
                                      cattttctcgccttt  CT-rich tract
                 aagaaata  TA-rich tract