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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGACGTATAGACATGAGCTTGGAATGAACTACAATTTCATACGCCCAGACTTGATCGTGGGCTCCTGCTTACAGgttctcaaatatcatctatctcaaccaatttacagaaggaaaaaaaaacacttcttaactctgtctgattagctgcattcatgtgcag

Basic information

species Oryza sativa
transcript LOC_Os03g01750.5
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g01750.5 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G052546_T04 (Zea mays), 5'ss of exon 3
-----------------------TGTTGACGTATAGACATGAGCTTGGAATGAACTACAATTTCATACGCCCAGACTTGATCGTGGGCTCCTGCTTACAGgttctcaaatatcatctatctcaaccaatttacagaaggaaaaaaaaacacttcttaactctgtctgattagctgcattcatgtgcag
                        |||||| ||||||||||| || || |||||||||||||||||||||||||||||||| || || |||||||||||||| |||   |  ||||  |||  |             |  | ||| | | || | || | ||||||||||| ||||||||||||||||
CTTTTCCCCCCATGTTATTATAGCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAGACTTGATTGTAGGATCCTGCTTACAGgtgctcg--tcgcatccttcttta-------------gacagaaatatcgctccctacccctgtctgattatctgcattcatgtgcag

upper sequence: LOC_Os03g01750.5 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G052546_T01 (Zea mays), 5'ss of exon 5
TGTTGACGTATAGACATGAGCTTGGAATGAACTACAATTTCATACGCCCAGACTTGATCGTGGGCTCCTGCTTACAGgttctcaaatatcatctatctcaaccaatttacagaaggaaaaaaaaacacttcttaactctgtctgattagctgcattcatgtgcag
 |||||| ||||||||||| || || |||||||||||||||||||||||||||||||| || || |||||||||||||| |||   |  ||||  |||  |             |  | ||| | | || | || | ||||||||||| ||||||||||||||||
CGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAGACTTGATTGTAGGATCCTGCTTACAGgtgctcg--tcgcatccttcttta-------------gacagaaatatcgctccctacccctgtctgattatctgcattcatgtgcag

upper sequence: LOC_Os03g01750.5 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA10G34370.1 (Glycine max), 5'ss of exon 5
TGTTGACGTATAGACATGAGCTTGGAATGAACTACAATTTCATACGCCCAGACTTGATCGTGGGCTCCTGCTTACAGgttctcaaatatcatctatctcaaccaatttacagaaggaaaaa---aaaacacttcttaactctgtctgattagctgcattcatgtgcag-
| ||||| ||||| |||||  | ||||||||||| |||||||| || ||||||||||| ||||| || ||| |||||||  |      |||  |||    |||   |   |    |  |||   |      | || |  ||| | |  ||  || | |  |  | |   
TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAGACTTGATTGTGGGATCATGCCTACAGgtattttttattcaattatggatacctgatcgaattctgtcaaatctagtttggtcctgacttctatttttttctctccctcaaattaccag

upper sequence: LOC_Os03g01750.5 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA20G33190.1 (Glycine max), 5'ss of exon 5
TGTTGACGTATAGACATGAGCTTGGAATGAACTACAATTTCATACGCCCAGACTTGATCGTGGGCTCCTGCTTACAGgttctcaaatatcatctatctcaaccaatttacagaaggaaaaaaaaacactt---cttaactctgtctgattagctgcattcatgtg--cag
| ||||| ||||| |||||  | ||||||||||| |||||||| || ||||||||||| ||||| || ||| |||||||  |      |||  |||    |||   ||  |    |  |||   |   ||   || |  ||| | |  ||   | |  |||  |   |||
TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAGACTTGATTGTGGGATCATGCCTACAGgtatttttgattcaattatggatacctgattgaattctgtcaaatctagttttgccctgacttctatttttttgtttcccctcaaattaccag

upper sequence: LOC_Os03g01750.5 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv00s0250g00020.t01 (Vitis vinifera), 5'ss of exon 5
TGTTGACGTATAGACATGAGCTTGGAATGAACTACAATTTCATACGCCCAGACTTGATCGTGGGCTCCTGCTTACAGgttctcaaatatcatctatctcaaccaatttacagaaggaaaaaaaaacacttctta--actctgtctgattagctgcattcatgtgcag-----
| ||||| ||||| |||||||| |||||||| ||||| ||||| || ||||||||||| ||||| || ||| |||||||      ||| ||| | |       ||||   || || |        |  |||| |  |     | |||||       ||| |    |      
TATTGACTTATAGGCATGAGCTAGGAATGAATTACAACTTCATTCGTCCAGACTTGATTGTGGGGTCTTGCCTACAGgt-----gataccatttctactctttaatt---aggagaagtttttttcctttctaagaagatcatttgatttttgtttttcctccaaatggcag

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|29678199|gb|CB674474.1|CB674474
EST:     TGAACTACAATTTCATACGCCCAGACTTGATCGTGGGCTCCTGCTTACAG                         AGCCCACTTGATGTTGATAAACTTAGGGACATTGGTGTAAAAACAGTATTC
genomic: TGAACTACAATTTCATACGCCCAGACTTGATCGTGGGCTCCTGCTTACAGgttctcaaat ... tcatgtgcagAGCCCACTTGATGTTGATAAACTTAGGGACATTGGTGTAAAAACAGTATTC