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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttttgatagtattttaactgttcatcattcactaaggatgaagtacattcaactctgggtgtctttgttcctgagtaaaaacttaaatgtagGTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGTATAGCAGTTGTTGGAAACATCAGTAGCAAAAATATTCAGGAGCCAAAAG

Basic information

species Oryza sativa
transcript LOC_Os01g43630.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g43630.1 (Oryza sativa), 3'ss of exon 8
lower sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 8
gtaagtttttttgatagtattttaactgttcatcattcactaaggatgaagtacattcaactctgggtgtctttgttcctgagtaaaaacttaaatgtagGTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGTATAGCAGTTGTTGGAAACATCAGTAGCAAAAATATTCAGGAGCCAAAAG
|||||| ||| | ||  || ||  ||||  | | | |||  |              || | |||    |     | | |||| | |      | ||| |||||||||| ||||||||| | || |||||||||||||||||||||||||||||||| ||||||||||| ||||| |||||||| || |||||||| ||||
gtaagtgtttgtaatgctagtt--actgacctttactcatga--------------tctattctaacag-----gattctgattta-----cacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG

upper sequence: LOC_Os01g43630.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G029077_T01 (Zea mays), 3'ss of exon 6
gtaagtttttttgatagtattt-----taactgttcatcattca--cta--aggatgaag---tacattcaactctgggtgtctttgttcctgagtaaaaacttaaatgtagGTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGTATAGCAGTTGTTGGAAACATCAGTAGCAAAAATATTCAGGAGCCAAAAG
|||||| ||| | ||  || ||     |   |  |||| ||  |  |||  ||||| | |   ||||||| ||| ||  | |   ||||   || | |||| | ||| | |||||||||||||||||||| | || ||||||||||||||||| |||||||||||||||||||| ||||| ||||| |||||||| ||||||||||||||||
gtaagtgtttgtaatgctagttactgatctttactcatgatctagtctagcaggattacgatttacattccact-tgtatcttgatgttttggatttaaaaataaaacgcagGTCTTGGTGAAAGATCTTCTCAGAAAATATCCTCAATGGAGTCATGATTGTATAGCAGTTGTGGGAAATATCAGCAGCAAAAACATTCAGGAGCCAAAAG

upper sequence: LOC_Os01g43630.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA04G08480.1 (Glycine max), 3'ss of exon 6
------------------------------------------------gtaagtttttttgatagtattttaactgttcatcattcactaaggatgaagtac----attcaactctg----ggtgtctt----tgttcctgagt--aaaaacttaaatgt--agGTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGTATAGCAGTTGTTGGAAACATCAGTAGCAAAAATATTCAGGAGCCAAAAG
                                                |||   ||  ||  |  ||| |||  ||   | |||    | |   | | | |     |||  |||  |    ||| |  |    |  | |  |||   |||  | |  |||  ||||  | |||||||||||  | || |||||||| |||||||| || |||||||| || ||||||||||| |||||||| |||||| | || || || || |
gtaaacatgacaagtgcctgctagctaccctgaaatttgtgcttaagagtagtattgctttgttttatattatatgca-aacatgtgttgaaagtaaggcattttgatttgacttagctatggtatggtagactaatgcgaagtttgaaagttcatttgttcagGTGCTTGTGAAAGATCTGCTAAGAAAATATCCACAATGGAGTCAGGATTGTATTGCTGTTGTTGGAAATATCAGTAGTAAAAATGTCCAAGAACCCAAGG

upper sequence: LOC_Os01g43630.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA06G08590.1 (Glycine max), 3'ss of exon 6
------------------------------------------------gtaagtttttttgatagtattttaactgttcatcattcactaaggatgaagtac----attcaactctg----ggtgtctt----tgttcctgagt--aaaaacttaaatgt--agGTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGTATAGCAGTTGTTGGAAACATCAGTAGCAAAAATATTCAGGAGCCAAAAG
                                                |||   ||  ||  |  ||| |||  ||   | |||    | |   | | | |     |||  |||  |    ||| |  |    |  | |  |||   |||  | |  |||  ||||  | |||||||||||  | || |||||||| |||||||| || |||||||| || ||||||||||| |||||||| |||||| | || || || || |
gtaaacatgacaagtgcctgctagctaccctgaaatttgtgcttaagagtagtattgctttgttttatattatatgca-aacatgtgttgaaagtaaggcattttgatttgacttagatatggtatggtagactaatgcgaagtttgaaagttcatttgttcagGTGCTTGTGAAAGATCTGCTAAGAAAATATCCACAATGGAGTCAGGATTGTATTGCTGTTGTTGGAAATATCAGTAGTAAAAATGTCCAAGAACCCAAGG

upper sequence: LOC_Os01g43630.1 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------------------------------gtaagtttttttgatagtattttaactgttcat-cattcactaaggatgaa-gtac-attcaactctgggtgtctttgttcctg--agtaaaaa---cttaaatgtagGTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGTATAGCAGTTGTTGGAAACATCAGTAGCAAAAATATTCAGGAGCCAAAAG
                                                            | |      |   | |  ||||   || ||||| |||  |   |  ||||   ||  ||| |||| |   |       ||  |   |||    |   ||   ||||||||  | || ||||||||  | ||||||||||| |||||||| |||||||| || ||||||||||| || ||||| ||||||||| |||||||||| || |
gtgaatttttacagctgtgcctagatgcttggatttttattgtgattgaatttgaacattgaaccaaactccaaaaaaatttatgctcttcatgcatagaagtaacatgagcatatgatttaactgttattaatcagattgatacaagtctggagttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG

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|66915427|gb|CX102275.1|CX102275
EST:     TTCTGCAATTCCTTGAAATGGACAAGGAATATGTGACGGCTGAAACTCTT                         GTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGT
genomic: TTCTGCAATTCCTTGAAATGGACAAGGAATATGTGACGGCTGAAACTCTTgtaagttttt ... ttaaatgtagGTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaagtacattcaactctgggtgtctttgttcctgagtaaaaacttaaatgtagGTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGTATAGCAGTTGTTGGAAACATCAGTAGCAAAAATATTCAGGAGCCAAAAG
                                      taaaaacttaaatgta  TA-rich tract