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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgcatgtgcatatgtgataaatatgcaaaaggtagtgttaattatcagtcttatgcttataaaaaaatattattatattattccatattttcttttcagAGACTTTGCCTCTTGTTGCACTAAATGATGATAGAGTTGTGGAGATACAAGGTGAGCCTGTTGGTGTCCAGAAAGCACTGGAATCGATAGCCAGTCACTT

Basic information

species Oryza sativa
transcript LOC_Os03g42900.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g42900.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G417223_T01 (Zea mays), 3'ss of exon 4
ttgcatgt-gcatatgtgataaatatgcaaaag-gtagtgttaattatcagtcttatgcttataaa---aaaatattattatattattccatattttcttttcagAGACTTTGCCTCTTGTTGCACTAAATGATGATAGAGTTGTGGAGATACAAGGTGAGCCTGTTGGTGTCCAGAAAGCACTGGAATCGATAGCCAGTCACTT
    || | ||| |  || |||  ||      | |||    || |  |  ||  |   ||||        || |  || |   |  ||  ||| ||| | |||||||| | |||||| ||||||||||||||||||||||||||||||||||||||| |||||| ||||||||||| ||||| ||||||  ||| | |||||| |
----atatagcaaaactgttaatcatttgtgcgtgtatctgtactggtatgttatcctcttaagggtgcgaacttctaattcgtagttttatacttt-tcttcagAGAATGTGCCTCCTGTTGCACTAAATGATGATAGAGTTGTGGAGATACAAGGCGAGCCTCTTGGTGTCCAGGAAGCAGTGGAATTAATATCGAGTCACCT
















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|58586006|gb|CF984314.1|CF984314
EST:     AACCATT-AATCCATTCAAGATTCTTCAAAGTCCATTGTTCGTATTGGTG                         AGACTTTGCCTCTTGTTGCACTAAATGATGATAGAGTTGTGGAGATACAAG
genomic: AACCATTAAATCCATTCAAGATTCTTCAAAGTCCATTGTTCGTATTGTTGgtaaggtttt ... ttcttttcagAGACTTTGCCTCTTGTTGCACTAAATGATGATAGAGTTGTGGAGATACAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagtcttatgcttataaaaaaatattattatattattccatattttcttttcagAGACTTTGCCTCTTGTTGCACTAAATGATGATAGAGTTGTGGAGATACAAGGTGAGCCTGTTGGTGTCCAGAAAGCACTGGAATCGATAGCCAGTCACTT
                                    ttccatattttctttt  CT-rich tract
            ttataaaaaaatatta  TA-rich tract