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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgttttgtatgtatatctagaaacttttgaagaccgtcactagctgaaatttttttagatggaaatttgtgaattgattatcgcataactttacttgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCATATGCCGTGGACGGACATTCCATGCACCGAGTGAGATTTCATTTTAGGA

Basic information

species Oryza sativa
transcript LOC_Os08g10600.2
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g10600.3 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G155729_T01 (Zea mays), 3'ss of exon 14
gtaacgttttgtatgtatatctagaaacttttgaagaccgtca-ctagctgaaatttttttagatggaaatttgtgaattgattatcgcataactttacttgtacttc-agGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCATATGCCGTGGACGGACATTCCATGCACCGAGTGAGATTTCATTTTAGGA
||||    ||| |    ||      |  ||||| |  | |||| | || | | | | |||| ||||| ||    |  |||| || |   | ||| || | |||||||| ||| |||||||||||||| ||| |||||||||| |||||||| || ||||| |||||| ||||| | |||||||||||||| |||||||||||||| |||| 
gtaa----ttgcagccctagtatatatgttttggaatctgtcagcaaggtaagaatatttttgatgggaacacattgattg-ttgt--taaaacattgcctgtacttccagGAGTTGAAGTTTCTCCGCTTTGCTCTTATGCTGGAGAGAATCTAGAAGCTATATGCAGTGGAAGAACATTCCATGCACCAAGTGAGATTTCATTCTAGGC

upper sequence: LOC_Os08g10600.3 (Oryza sativa), 3'ss of exon 14
lower sequence: GLYMA05G26240.1 (Glycine max), 3'ss of exon 14
-------------------------------------------------------------------------------------gtaacgttttgtatgtatatctagaaacttttgaagaccgtcactagctgaaatttttttagatggaaatttgtgaattgattatcgcataactttacttgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCATATGCCGTGGACGGACATTCCATGCACCGAGTGAGATTTCATTTTAGGA
                                                                                       ||  | |   ||  |||  | || |  |   |      |   |||   ||   |  |   ||  || | | |   ||  | ||   ||  |  | |   || ||||||||||||||| || |||||  | || ||||| || || ||||||||| | ||||| || ||| | ||||| ||||||||  ||||||| |||||||||  
gtaggttatttactctttatttccaaggagaagaaatatagttgcggccggactcttacccagacatatgtatacacacatggagagaatatgtgacataaatagatggagagatagtatattttttgttagaaaaatgatggtcttatctaactctttttcttt-tcatgaaatgtccctgccctta-ttcagGTGTTGAAGTGTCACCACTCTGTTCGTATGCTGGTGAAAACCTGGAACCTATATGTCGAGGAAGAACATTTCATGCACCTTGTGAGATCTCATTTTAGTT
















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|88244522|gb|CI243644.1|CI243644
EST:     CGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: CGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|88249120|gb|CI248969.1|CI248969
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACTTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|3762886|gb|AU029638.1|AU029638
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|58676490|gb|CK065177.1|CK065177
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|218484530|gb|FG955871.1|FG955871
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|8860129|gb|AU097447.1|AU097447
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|29685401|gb|CB681676.1|CB681676
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|86425777|gb|CI070874.1|CI070874
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|218481588|gb|FG958598.1|FG958598
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|88958308|gb|CI095827.1|CI095827
EST:     CAGGTGGCTTTTTGACTCATTCCGTGCCCTNGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: CAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|29674853|gb|CB671128.1|CB671128
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|29616665|gb|CB621677.1|CB621677
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|58653914|gb|CK042594.1|CK042594
EST:     GGTATCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|8858093|gb|AU095411.1|AU095411
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|58685945|gb|CK074632.1|CK074632
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|88974625|gb|CI022951.1|CI022951
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|3767528|gb|AU031622.1|AU031622
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|29685402|gb|CB681677.1|CB681677
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|58607867|gb|CK035900.1|CK035900
EST:     GGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|29289881|gb|CB483495.1|CB483495
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
EST: gi|88961208|gb|CI096612.1|CI096612
EST:     GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAG                         GTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA
genomic: GGTAGCTGCAGGTGGCTTTTTGACTCATTCCGTGCCCTTGTATATGACAGgtaacgtttt ... tgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttagatggaaatttgtgaattgattatcgcataactttacttgtacttcagGTGTTGAAGTTTCTCCACTTAGCTCTTATGCGGGAGAGAACCTGGAAGCCATATGCCGTGGACGGACATTCCATGCACCGAGTGAGATTTCATTTTAGGA
                                gcataac  putative branch site (score: 3)
                                      ctttactt  CT-rich tract
                     aattgattat  TA-rich tract