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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttaatcctctagcattttgttttctttggaaaagcatgtgattttaagccggctggtcctcatacccagacctagtgatctttatatagtgtagacatttttctaactgcttttaattgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCCGCCACTCCGGCGGCTGGTCCTCTGCATGGTGTGGCACTGAATAATCCAT

Basic information

species Oryza sativa
transcript LOC_Os05g22940.1
intron # 32
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g22940.1 (Oryza sativa), 3'ss of exon 32
lower sequence: AC197672.3_FGT002 (Zea mays), 3'ss of exon 30
gtaagtttaatcctctagcattttgttttctttggaaaa-gcatgtgattttaagccggctg--gtcctcatacccagacctagtgatctttatatagtgtagacatttttctaactgc-------ttttaattgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCCGCCACTCCGGCGGCTGGTCCTCTGCATGGTGTGGCACTGAATAATCCAT
|||||||       ||    || | |||| | |  || |  ||||    |||||||    ||  || || |||  | ||  |    |     ||  | |||    || ||   ||   |       || |||| | ||||||||||||| ||  ||||||||| |||||| | ||||||| |||||||| | || ||| || | ||||||||  |||||||||| |||||||||||||| |
gtaagttgtccttactgtttttgtattttgtatataacacacatgaagatttaagcaacatgcagttcttatattccgaaatccgaactgccatcca-tgtcattatgttctgaagcacatagtatttctaatggatttagATCTACCGAGAAGTGGAAGATACAGAATCGCAGAAGTTACTATACCATTCAGCTACTTCGTCAGCTGGTCCAATGCATGGTGTTGCACTGAATAATCCTT

upper sequence: LOC_Os05g22940.1 (Oryza sativa), 3'ss of exon 32
lower sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 30
gtaagtt-----taatcctctagcattttgttttctttggaaaagcatgtgattttaagccggc---tggtcctcatacccagac-ctagtgatctttatatagtgtagacatttttctaactgcttttaattgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCCGCCACTCCGGCGGCTGGTCCTCTGCATGGTGTGGCACTGAATAATCCAT
|||||||     || |  | ||| ||| |||   | ||| | |  |||   | |  ||| |      |||| || |||   |    | |   || |   |||  | |  |     |    | | ||| |||| ||||||||| ||||| ||  |||| || | |||||| | ||||||||| |||||| | |||||| || | ||||| ||  |||||||||| ||||||||||||||||
gtaagttgtccctactgttttagtattctgt--acattgcaca--catcacaatacaagtcaatgtgtggttcttatatttaactgccatccatgtcattattttctgaagcacat----agtacttctaatggttttagATATACCGAGAAGTGGAGGAAATAGAATCGCAGAAGTTAGTGTACCATTCAGCCACTTCGTCAGCTGGACCATTGCATGGTGTTGCACTGAATAATCCAT
















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|58659246|gb|CK047926.1|CK047926
EST:     CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGAT                         ATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
genomic: CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGATgtaagtttaa ... attgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
EST: gi|58672807|gb|CK061493.1|CK061493
EST:     CCTGGAGGATTGTAACAACCAATGTTACGAGTCACACTTGCACTGTGGAT                         ATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
genomic: CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGATgtaagtttaa ... attgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
EST: gi|29684015|gb|CB680290.1|CB680290
EST:     GTAACAACCAATGTTCCTAGTCACACTTGCACTGTGGAT                         ATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
genomic: GTAACAACCAATGTTACTAGTCACACTTGCACTGTGGATgtaagtttaa ... attgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
EST: gi|29681304|gb|CB677579.1|CB677579
EST:     CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGAT                         ATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
genomic: CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGATgtaagtttaa ... attgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
EST: gi|29624333|gb|CB629344.1|CB629344
EST:     CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGAT                         ATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
genomic: CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGATgtaagtttaa ... attgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
EST: gi|33678996|gb|CF307235.1|CF307235
EST:     CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGAT                         ATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
genomic: CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGATgtaagtttaa ... attgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
EST: gi|58691648|gb|CK080335.1|CK080335
EST:     CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGAT                         ATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
genomic: CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGATgtaagtttaa ... attgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
EST: gi|58665399|gb|CK054085.1|CK054085
EST:     CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGAT                         ATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC
genomic: CCTGGAGGATTGTAACAACCAATGTTACTAGTCACACTTGCACTGTGGATgtaagtttaa ... attgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctagtgatctttatatagtgtagacatttttctaactgcttttaattgttttagATCTACCGTGAGATGGAAGATAAAGAATCACGGAAGTTAGTATACCATCCCGCCACTCCGGCGGCTGGTCCTCTGCATGGTGTGGCACTGAATAATCCAT
                                              ttgtttt  CT-rich tract
                                        ttttaattgtttta  TA-rich tract