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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gattaagagcataaactcgatggaaaataatatgccctttttttgaagttatattgacatttagggtttagtataaccaacttatgagttttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCATAATTGGTGATGACTCTTCCATATTTGTGGCGACTGATCGAACGTCATG

Basic information

species Oryza sativa
transcript LOC_Os11g03730.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g03730.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G077299_T01 (Zea mays), 3'ss of exon 3
------------------------------------------------------------------------------------gattaagagcataaactc---gatggaaaataatatgcccttttttt---gaagttatattgacatttagggtttag-tataaccaacttatgagttttatgc-acagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCATAATTGGTGATGACTCTTCCATATTTGTGGCGACTGATCGAACGTCATG
                                                                                    | ||  | | | || ||     || ||  ||| || ||  ||    |   |||| |    | | || |      | | | | |   |   |     |||||||  |||| ||||||||||||||||  ||||| |||||||||||||| ||||||||||| ||||| || ||||| ||  ||||||||| ||| ||||| || |||||
gtgattcagccatgcctgcttttcacatgcccttgttttgagcgtaagcttcaaagggttccgaaaatgatgaactgaaaatttgtttttggggacaagcttttgaatagatcatactaggcttttccccttcggaagcttctgtcagatgtcaaacctggattttatgcataaactgcatttatgctgcagGGTTTGAAGCTGGAGGCCTCCATACTCCATCAAACATTGACCCATGGTCCATCATTGGAGACGACTCCTCTGTATTTGTGGAGACCGATCGCACATCATG

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G006130_T06 (Zea mays), 3'ss of exon 3
--------------gattaagagcataaactcgatggaaaataat---atgccctttttttgaa-gttatattgacatttagggtttagtataaccaacttatgagttttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCATAATTGGTGATGACTCTTCCATATTTGTGGCGACTGATCGAACGTCATG
                | ||     |   |    || || || |    |||| ||| ||||||| | |          ||   ||| |   |     |  |  || |||||    ||||||| |||||||||||| ||||||| ||||||||||| || || |||||||| ||||| |||||||| ||| | || |||||||||||||| || |||||
gtaccccagctattcttgaattctgtgtgccttttgaaacatcactagatgcacttattttgaaagctgctgccggtgttgatgttcaaggttttggagctg-gatttttactt-cagGTTTCGAAGCTGGAGGCTCTCATACTCCATCAAACATCGACCCGTGGTCCATCATTGGAGATGACTCCTCCGTGTTCGTGGCGACTGATCGTACATCATG
















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|88763952|gb|CI773368.1|CI773368
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|29673416|gb|CB669691.1|CB669691
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|29628283|gb|CB633294.1|CB633294
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|29632559|gb|CB637568.1|CB637568
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGACGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|88734903|gb|CI758411.1|CI758411
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|29646541|gb|CB651548.1|CB651548
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|88740536|gb|CI764044.1|CI764044
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|29638131|gb|CB643140.1|CB643140
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|88745225|gb|CI768585.1|CI768585
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|88735131|gb|CI758639.1|CI758639
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|29680212|gb|CB676487.1|CB676487
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|29674874|gb|CB671149.1|CB671149
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|29634180|gb|CB639189.1|CB639189
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
EST: gi|88737430|gb|CI760938.1|CI760938
EST:     CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAG                         GTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA
genomic: CAACCATGCAGGGGCTGGTGGAATATGGGCTGAACTTGTTAGTAACAGAGgtacttcagt ... ttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagttatattgacatttagggtttagtataaccaacttatgagttttatgcacagGTTTTGAAGCTGGAGGCCCTCATACCCCATCAAACATTGATCCATGGTCCATAATTGGTGATGACTCTTCCATATTTGTGGCGACTGATCGAACGTCATG
                     tttagtataa  TA-rich tract