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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGGATTCTGGCTGATCTAAGGGAGCTTGCTTCAGCTGAGAGTCTGGATAGTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCGgtaattttttcaacaagctactcgattttgccagaaattagtggtttagtagtgcattcatttctgttgatgtgctgaacttgatatctacgttatgtag

Basic information

species Oryza sativa
transcript LOC_Os02g51430.2
intron # 22
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g51430.1 (Oryza sativa), 5'ss of exon 23
lower sequence: GRMZM2G070045_T01 (Zea mays), 5'ss of exon 18
GCGGATTCTGGCTGATCTAAGGGAGCTTGCTTCAGCTGAGAGTCTGGATAGTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCGgtaatttttt---caacaagc-tactcgattttgccagaaattagtggttt----------agtagtgcattcatttctgttgatgtgctg-aacttgatatctacgttatgtag
|||||||||||| ||| | |||||||| ||||||||||||||| ||||||| |||||||||||||| || ||||| |||||||||||||| ||||||||||||||||| |    |||||   || | |  || || |    ||  | ||||          |  ||  | ||  ||||   | |||  ||  ||||||| |||| |||| | |||
GCGGATTCTGGCAGATATGAGGGAGCTAGCTTCAGCTGAGAGTTTGGATAGCTTTACTCTCATTTACACTAATATACTGGAACATCAACCTGATTGCCCGgtaattttctgcctaacaaatatatttggcttcgctaatgcttgattgttttaaaatatgaaacagctcgttattttcccgttatgccctacaacttgacatctgcgttttttag

upper sequence: LOC_Os02g51430.1 (Oryza sativa), 5'ss of exon 23
lower sequence: GRMZM2G161553_T01 (Zea mays), 5'ss of exon 5
GCGGATTCTGGCTGATCTAAGGGAGCTTGCTTCAGCTGAGAGTCTGGATAGTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCGgtaatttttt---caacaagc-tactcgattttgccagaaattagtggtttagtagtgc--attcatttctgttgatgtgctgaacttgatatctacgttatgtag-----------------------------------------------------------------------------------------
|||||||||||| ||| | || || || |||||||||| |||| ||||||| |||||||||||||  |||||||| |||||||||||||| ||||||||||||||||| |    |||||   || ||   ||||| |    ||     || |  | |    |   || |  |    | |||     || ||  ||  |  |                                                                                              
GCGGATTCTGGCAGATATGAGAGATCTAGCTTCAGCTGGGAGTTTGGATAGCTTTACTCTCATTTTCACAAATATACTGGAACATCAACCTGATTGCCCGgtaattttctgcctaacaaatatattcagctttgctaatgctttactattgaaaaatatgaaacaatatgagcctctctgcatcggtttatccctttgccagactccactcctgggagagactctggcattggatttgtccttttttatgttaatttctcgttatgtcctacaacttgacatctgtgttttttag

upper sequence: LOC_Os02g51430.1 (Oryza sativa), 5'ss of exon 23
lower sequence: GLYMA03G03120.2 (Glycine max), 5'ss of exon 24
GCGGATTCTGGCTGATCTAAGGGAGCTTGCTTCAGCTGAGAGTCTGGATAGTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCGgtaattttttcaacaagcta--ctcgattttgccagaaattagtg-gtttagtagtgcattcatttctgttgatgtgctgaact-tgatatctacgttatgtag
| |  | ||    ||  | ||||||||||||||||| ||||| |||||||  ||||| ||||| ||||||||||| || ||||||||||| || ||||||||||  || |   ||| |||  ||| |||||  ||   |  | ||  | ||  ||| | || |    |    || |  |   |  ||   |  | |||||    
GAGTGTACTTAGCGACTTGAGGGAGCTTGCTTCAGCAGAGAGCCTGGATACCTTTACACTCATCTATACAAATATACTCGAACATCAACCTGACTGCCCGgtaaaattatgcccaatctaatctcaatttttgcattcacaaatgcatgtatgagttctttaagcagttgaaatattttttgcagtgggtttcaagttat----

upper sequence: LOC_Os02g51430.1 (Oryza sativa), 5'ss of exon 23
lower sequence: Vv03s0097g00670.t01 (Vitis vinifera), 5'ss of exon 23
GCGGATTCTGGCTGATCTAAGGGAGCTTGCTTCAGCTGAGAGTCTGGATAGTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCGgtaattttttcaacaagctactcgattttgccagaaattagtggtttagtagtgcattcatttctgttgatgtgctga--acttgatatctac--gttatgtag
  |||| |||  |||  | || ||||||||||| || ||||| ||||||| ||| || ||||| || ||||| ||||| ||||||||||| ||||| || |||| |  |   | ||       | |  ||  ||  |  | |  ||| ||  ||   |  |   | |  |  | |  |  || | ||| |  |  | ||| |  
CAGGATACTGAGTGACTTGAGAGAGCTTGCTTCCGCAGAGAGCCTGGATACTTTCACACTCATCTACACAAACATTCTTGAACATCAACCCGATTGTCCAgtaagtgctattaaaaatagt--gttcatggtagtgaccatt--tttcgttttgtggttctgagtatcaaattccaaataacctaatagcctctagctattttc

upper sequence: LOC_Os02g51430.1 (Oryza sativa), 5'ss of exon 23
lower sequence: Vv12s0034g02360.t01 (Vitis vinifera), 5'ss of exon 23
GCGGATTCTGGCTGATCTAAGGGAGCTTGCTTCAGCTGAGAGTCTGGATAGTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCGgtaattttttcaacaagctactcgattttgccagaaattagtggtttagtagtgcattcatttc-tgttgatgtgctgaacttgatatctacgttatgtag--
  |||| |||  |||  | || ||||||||||| || ||||| |||||||  || || ||||| || ||||| ||||| ||||||||||| ||||| || |||| |  |   | ||       | |  ||  ||  |   ||    | ||||||      |||| | |||  || ||||   | | |       ||   |   
CAGGATACTGAGTGACTTGAGAGAGCTTGCTTCTGCAGAGAGCCTGGATACATTCACACTCATATACACAAACATTCTTGAACATCAACCTGATTGTCCAgtaagtgctattaaaaatagt--gttcatggtagtgacc-gtttcatggtagtgaccgtttttcattttgtagttctgagtatcaaactctaaataaccatca

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|87031003|gb|CI270151.1|CI270151
EST:     GTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCG                         CCTGAGGTTGTTGAGAAGCTTGTGGGAATGAGGGAAGGCATTCCAAGGAAG
genomic: GTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCGgtaatttttt ... cgttatgtagCCTGAGGTTGTTGAGAAGCTTGTGGGAATGAGGGAAGGCATTCCAAGGAAG
EST: gi|86482093|gb|CI124726.1|CI124726
EST:     GTTTTACTCTCATTTATACCAATATTCTGGAACATCAACCAGATTGCCCG                         CCTGAGGTTGTTGAGAAGCTTGTGGGAATGAGGGAAGGCATTCCAAGGAAG
genomic: GTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCGgtaatttttt ... cgttatgtagCCTGAGGTTGTTGAGAAGCTTGTGGGAATGAGGGAAGGCATTCCAAGGAAG
EST: gi|86855814|gb|CI271033.1|CI271033
EST:     GTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCG                         CCTGAGGTTGTTGAGAAGCTTGTGGGAATGAGGGAAGGCATTCCAAGGAAG
genomic: GTTTTACTCTCATTTATACAAATATTCTGGAACATCAACCAGATTGCCCGgtaatttttt ... cgttatgtagCCTGAGGTTGTTGAGAAGCTTGTGGGAATGAGGGAAGGCATTCCAAGGAAG