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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGGTGGAAGCTCGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttcaagtctctctggtctttccttaaaggcactgggcttctgatgcatcttgttttcatttagtaatgatgaactagatatctgcaacataac...

Basic information

species Oryza sativa
transcript LOC_Os01g09120.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g09120.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G176506_T07 (Zea mays), 5'ss of exon 6
GAAAGGTGGAAGCTCGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttcaagtctctctggtctttccttaaaggcactgggcttctgatgcatcttgttttcatttagtaatgatgaactagatatctgcaacataac--
||||| |||||| || ||| |||||| ||||||| |||||||||| ||| |||| |||||||||||||| || ||  | |||| |||||| ||| ||||  ||||    ||  ||||||       ||| |    |||    |  |   | | ||| |   | |  
GAAAGATGGAAGTTCATTCTGTGATCATCTACATGTATCTCCTATCCGAGATGCTTCGGGCAAGgttcgcttacatctttctcaggtcttccctgaaagaaactgtctctcaaatgcattaaacaatcactacacaattgcta--tgtttgtgtgctatgaagctc

upper sequence: LOC_Os01g09120.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G176506_T04 (Zea mays), 5'ss of exon 6
GAAAGGTGGAAGCTCGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttcaagtctctctggtctttccttaaaggcactgggcttctgatgcatcttgttttcatttagtaatgatgaactagatatctgcaacataac---------------------------------------------------------------------------------------------------------------
||||| |||||| || ||| |||||| ||||||| |||||||||| ||| |||| |||||||||||||| || ||  | |||| |||||| ||| ||||  ||||    ||  ||||||       ||| |    |||    |  |   | | ||| |   | |                                                                                                               
GAAAGATGGAAGTTCATTCTGTGATCATCTACATGTATCTCCTATCCGAGATGCTTCGGGCAAGGTTCGCTTACATCTTTCTCAGgtcttccctgaaagaaactgtctctcaaatgcattaaacaatcactacacaattgcta--tgtttgtgtgctatgaagctctaaactacggaacagaatagatttgcagtttgctatcagtcagatattccgctcttgtacaaccatcatggggattttttttttcccgactgacttcatacctacgcag

upper sequence: LOC_Os01g09120.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G176506_T03 (Zea mays), 5'ss of exon 5
GAAAGGTGGAAGCTCGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttcaagtctctctggtctttccttaaaggcactgggcttctgatgcatcttgttttcatttagtaatgatgaactagatatctgcaacataac--
      |||||| || ||| |||||| ||||||| |||||||||| ||| |||| |||||||||||||| || ||  | |||| |||||| ||| ||||  ||||    ||  ||||||       ||| |    |||    |  |   | | ||| |   | |  
-----ATGGAAGTTCATTCTGTGATCATCTACATGTATCTCCTATCCGAGATGCTTCGGGCAAGgttcgcttacatctttctcaggtcttccctgaaagaaactgtctctcaaatgcattaaacaatcactacacaattgcta--tgtttgtgtgctatgaagctc

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|29660689|gb|CB656964.1|CB656964
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|29660992|gb|CB657267.1|CB657267
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|88221282|gb|CI221238.1|CI221238
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|29640574|gb|CB645583.1|CB645583
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|29680769|gb|CB677044.1|CB677044
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|86505958|gb|CI148591.1|CI148591
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|88966127|gb|CI013003.1|CI013003
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|86527492|gb|CI167698.1|CI167698
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|88461305|gb|CI547485.1|CI547485
EST:     CGTTCCGTGGTCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|87027196|gb|CI278228.1|CI278228
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|31818552|gb|CD645551.1|CD645551
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCGTCGGGCGAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|29662742|gb|CB659017.1|CB659017
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|29657673|gb|CB653948.1|CB653948
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAAGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|14571448|gb|BI118816.1|BI118816
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCGTCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|38474285|gb|CF958417.1|CF958417
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCGTCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTG
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTG
EST: gi|86869605|gb|CI322091.1|CI322091
EST:     CGTTCCATTATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTG-AGGTTCACCTTGATGAGGGGTGCAAAGTATGATTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGA-GGGTGCAAAGTATGATTT
EST: gi|88228766|gb|CI228246.1|CI228246
EST:     CGTTCCGTGATCTTCTACATATATTTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|29660961|gb|CB657236.1|CB657236
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCCCCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|29655805|gb|CB652080.1|CB652080
EST:     CGTTCCGTGATCTTGTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCACCCTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT
EST: gi|29638115|gb|CB643124.1|CB643124
EST:     CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAG                         GTAGCATTTCACGTGTGGGTTCCCCTTGATGAGGGTGCAAAGTATGATTTT
genomic: CGTTCCGTGATCTTCTACATATATCTCCTATACGAAATGCATCGGGCAAGgttcgttttc ... gcctgtgcagGTAGCATTTCACGTGTGGGTTCACCTTGATGAGGGTGCAAAGTATGATTTT