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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagccagcagaactaagttgtttcctttttacaagcaaaaatatatttgtattctagaaaacaatggcttgaatactctaaataatgttatgtcttgataaatatgattgtcatgaaacttccagATAAATTGAAGGAGCATTTCTCTTCATATGGGAAGGTAGTTGAGCATCAGATAATGCTTGACCATGGCACTGGGCGGTCACGAGGCTTTGGCTTTGTCAC

Basic information

species Oryza sativa
transcript LOC_Os06g37000.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g37000.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G104481_T01 (Zea mays), 3'ss of exon 4
gtagccagcagaactaagttgtttcctttttacaagcaaaaatatatttgtatt----ctagaaaacaatggcttgaatactctaa-----ataat-gttatgtcttgataa----------atatg--------attgtcatgaaacttccagATAAATTGAAGGAGCATTTCTCTTCATATGGGAAGGTAGTTGAGCATCAGATAATGCTTGACCATGGCACTGGGCGGTCACGAGGCTTTGGCTTTGTCAC
||| | |||    || |    | |  | ||| ||||||||||    | || |||     |  |||  |    ||| |||   | |      ||||| |||  | ||||  ||          | |||        |||   ||||| |||||||||||||| |||||||| ||||| || || |||||||| |||||||||||||| |||||||| ||| ||||||| || ||||| |||||||| ||||||||
gta-caagcgttgctgaaacctcttttgttt-caagcaaaaaatattctgcattgaaattgcaaattataaacttcaatgagccaccagctataattgttgggccttgcaaacattcatttcaaatgctagcaatattaatatgaaccttccagATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGATTATGCTTGATCATAGCACTGGACGTTCACGGGGCTTTGGATTTGTCAC

upper sequence: LOC_Os06g37000.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G064518_T01 (Zea mays), 3'ss of exon 4
gtagccagcagaactaagttgtttcctttttacaagcaaaa-atatat-----ttgtatt---ctagaaa-acaatggcttgaat------------actctaaataatgttatgtcttg-ataaatatgattgtcatgaaacttccagATAAATTGAAGGAGCATTTCTCTTCATATGGGAAGGTAGTTGAGCATCAGATAATGCTTGACCATGGCACTGGGCGGTCACGAGGCTTTGGCTTTGTCAC
||| | |||   ||| |    |||  | |||  |||||||| ||||       |||||||   || | || | |||  |||  ||            ||  | || |   || | ||      ||| ||||||   ||||| ||| |||||||||| |||||||| ||||| || ||||||||||| |||||||||||||| |||||||||||| ||||||| || ||||| |||||||| ||||||||
gta-caagcgacactgaaacattttttgtttgtaagcaaaagatatggcaacattgtattgaactggcaatataataactttgatcagccaccagctaccttgaaaacatttgtttcaaatgcaaacatgattaatatgaaccttgcagATAAATTAAAGGAGCACTTCTCATCGTATGGGAAGGTGGTTGAGCATCAGATTATGCTTGACCATAGCACTGGACGCTCACGTGGCTTTGGATTTGTCAC
















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|163928021|gb|EG709469.1|EG709469
EST:     TAAAACGAGAAAAATCTTTGTTGGTGGTATTCCACCATCTCTTACTGAAG                         ATAAATTGAAGGAGCATTTCTCTTCATATGGGAAGGTAGTTGAGCATCAGA
genomic: TAAAACGAGAAAAATCTTTGTTGGTGGTATTCCACCATCTCTTACTGAAGgtagccagca ... aaacttccagATAAATTGAAGGAGCATTTCTCTTCATATGGGAAGGTAGTTGAGCATCAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatactctaaataatgttatgtcttgataaatatgattgtcatgaaacttccagATAAATTGAAGGAGCATTTCTCTTCATATGGGAAGGTAGTTGAGCATCAGATAATGCTTGACCATGGCACTGGGCGGTCACGAGGCTTTGGCTTTGTCAC
                                                cttcc  CT-rich tract
        taaataatgttatgtc  TA-rich tract