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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtcattatcctggcgatgtagaaactcatttttttcattattagaacattgttattgaagcaatttgaataattgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGGGGCCCTTATCTAATGGGAGACCAGCCGTTAATTACTCATACTTGAGCGC

Basic information

species Oryza sativa
transcript LOC_Os06g02550.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g02550.1 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM5G864414_T02 (Zea mays), 3'ss of exon 15
gtttgtcattatcctggcgatgtagaaactcatttttttcattattag--aacattgttattgaagcaatttgaataattgatct--------acagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGGGGCCCTTATCTAATGGGAGACCAGCCGTTAATTACTCATACTTGAGCGC
||   ||| ||| || | ||| |  |  |||| |     |||| ||       ||  || |||||  | ||   ||||| |||||          || |||||||||||||||||| |||||||||||   ||||||||| | | ||||  |  || | |||| ||| ||| | ||||||||||| ||||||||   
gtacctcaatattcttgagatctgca--ctcaatcgccacattcttttccgttatacttgttgaacaagttcacataatggatctctatttctgtagCTGGGGCTAAAGGAGCTGTTGATCAGAAGAACATTAGGAGATACTACATGGGTACTGTACCCAATGCGAGGCCAACAGTTAATTACTCGTACTTGAGAAA
















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|29638209|gb|CB643218.1|CB643218
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|58685705|gb|CK074392.1|CK074392
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|88691087|gb|CI735166.1|CI735166
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|88691956|gb|CI735531.1|CI735531
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|218500572|gb|FG950928.1|FG950928
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGC-TAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTG
EST: gi|66916087|gb|CX102935.1|CX102935
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|58687727|gb|CK076414.1|CK076414
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|58593890|gb|CF992198.1|CF992198
EST:     AAAC-GATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGTGAGATATTCCGTG
genomic: AAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAG-GAGATATTCCGTG
EST: gi|29666198|gb|CB662473.1|CB662473
EST:     ATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: ATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|29626826|gb|CB631837.1|CB631837
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|29685601|gb|CB681876.1|CB681876
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCT
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCT
EST: gi|88689214|gb|CI732790.1|CI732790
EST:     TTCACTTCGATTCAGATCAANAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|29626870|gb|CB631881.1|CB631881
EST:     ATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: ATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|88691942|gb|CI735517.1|CI735517
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
EST: gi|88688550|gb|CI732126.1|CI732126
EST:     TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAG                         TTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG
genomic: TTCACTTCGATTCAGATCAACAAACGGATATGCAGCAACACCACCATCAGgtttgtcatt ... tgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttcattattagaacattgttattgaagcaatttgaataattgatctacagTTGGGGCTAAAGGAGCTGTGGATCAGAAGAATGCTAGGAGATATTCCGTGGGGCCCTTATCTAATGGGAGACCAGCCGTTAATTACTCATACTTGAGCGC
                                          aattgat  putative branch site (score: 4)
                                 aatttgaataattgat  TA-rich tract