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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgatacatagcaaggattccgttcttttaatccttttctctctattgcttgatttagttctaagttcctctcattttcctgaagTTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATAT

Basic information

species Oryza sativa
transcript LOC_Os02g12800.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g12800.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 4
gtaagtgatacatagcaaggattccgttcttttaatccttttctctctattgcttgatttagttctaagttcctctcattttcctgaagTTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATAT
|||| | | |  | ||||  |||  |||  |||| || |||  |  |  ||  |||||| ||  |  | ||| | |||| | |||||||||||||||| |||| || |||||||||| || || |||||||||||||| |||
gtaatttaaatgttgcaacaattg-gtttgtttagtcttttgtttgcatttatttgattgagcaccgaattc-tgtcatctccctgaagTTACTCGCTTGAAGGCTAACAACCCACTTTACGGATCTTCACTGATTGATTAT

upper sequence: LOC_Os02g12800.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 4
gtaagtgatacatagcaaggattccgttcttttaatccttttctctctattgcttgatttagttctaagttcctctcattttcctgaagTTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATAT
|||| | | |  ||||||  |||  ||| |||  |  ||  | | |  |||  ||  |||||  || | ||| | |||| ||  |||||||||||||| |||| |||| |||||||| ||||| |||||||||||||| |||
gtaattcaaatgtagcaaccattgggtttttt--agtctcctgtttgcatttatttttttagcactgaattc-tgtcatctttttgaagTTACTCGCTTGAAGGCTGATAACCCACTTTATGGATCTTCACTGATTGATTAT
















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|88991494|gb|CI034829.1|CI034829
EST:     AGAGACTCCTGATGGTCCTGTTTTTGAAAGCAATGCGATTGCACGATATG                         TTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAAT
genomic: AGAGACTCCTGATGGTCCTGTTTTTGAAAGCAATGCGATTGCACGATATGgtaagtgata ... tttcctgaagTTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAAT
EST: gi|58601569|gb|CK012097.1|CK012097
EST:     AGAGACTCCTGATGGTCCTGTTTTTGAAAGCAAGGTGATTGCACGATATG                         TTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAAT
genomic: AGAGACTCCTGATGGTCCTGTTTTTGAAAGCAATGCGATTGCACGATATGgtaagtgata ... tttcctgaagTTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAAT
EST: gi|58663459|gb|CK052145.1|CK052145
EST:     AGAGACTCCTGATGGTCCTGTTTTTGAAAGCAATGTGATTGCACGATATG                         TTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAAT
genomic: AGAGACTCCTGATGGTCCTGTTTTTGAAAGCAATGCGATTGCACGATATGgtaagtgata ... tttcctgaagTTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atccttttctctctattgcttgatttagttctaagttcctctcattttcctgaagTTACTCGCTCGAAGTCTGACAACCCACTCTATGGGTCTTCACTGATTGAATAT
                                   ttcctctcattttcct  CT-rich tract
                   ttgattta  TA-rich tract