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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGGCCTCTTTTTCTATGATATTTTCTGGGTTTTCTTCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAGgttagtgttctttataagtgattttgactcttgttttgatacaaaatgtctttttctttttacaaaaaaaggctaatctggttatccccttttttctgcatag

Basic information

species Oryza sativa
transcript LOC_Os02g02530.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g02530.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA14G21190.1 (Glycine max), 5'ss of exon 3
GCTGGCCTCTTTTTCTATGATATTTTCTGGGTTTTCTTCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAGgttagtgttctttataagtgattttgactct--tgttttgatacaaaatgtctttttctttt-tacaaaaaaaggctaatctggttatccccttttttctgcatag
||||| |||||| | ||||| ||||||||||||||||||||||| || |||||||| |||||||||||||||||||| || ||||||||||   || |    || | |||||   | |  | | ||  |   || | |   | | |  |   |     |  || || |||   |    ||| |||        
GCTGGACTCTTTGTTTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTCAGCGTTGCAAAATCATTTGATGCTCCAATAAAGgttaacattttaatgaaataattttatttttcctatcttcgtgtgaagtttaaatgtttaatactcccttgattgcgaaactgtagactttcttgtttaa------

upper sequence: LOC_Os02g02530.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA06G08620.3 (Glycine max), 5'ss of exon 8
GCTGGCCTCTTTTTCTATGATATTTTCTGGGTTTTCTTCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAGgttagtgttctttataa-------gtgattttgactc----ttgttttgatacaaaatgtctttttctttttaca--aaaaaaggctaatctggttatccccttttttctgc-atag-----------------
||||| || ||| | ||||| ||||||||||||||||||||||| || ||||| || |||||||||||||||||||| || ||||||||||   || ||  |||       | |||||    |     |||| |  ||   || ||| | |||  | | | |  | | |||   ||| |  | |  |  ||  |  |    |                   
GCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAGgttaagttttttgctaatgaaatggagatttctgtttgtctttgtgtgaattttaattgtatatttactatgatatcagataagaaaaatgtaataaatctattcctaatattgtcattcaaattattttgcag

upper sequence: LOC_Os02g02530.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA04G08510.1 (Glycine max), 5'ss of exon 8
GCTGGCCTCTTTTTCTATGATATTTTCTGGGTTTTCTTCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAGgttagtgttctttataa-------gtgattttgactc----ttgttttgatacaaaatgtctttttctttttaca------aaaaaaggctaatctggttatccccttttttctgcatag-------------
||||| || ||| | ||||| |||||||||||||||||||| || || |||||||| |||||||||||||||||||| || |||||||||||| || ||  |||       | |||||    |     |||| |  ||   || ||| |  ||  | | | |      ||||||   ||||     ||| ||   | || |   |               
GCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACCCCAGTGATGGTCAGCGTTGCAAAATCATTTGATGCTCCAATAAAGgttagtttttttgctaatgaaatggagatttctgtttgtctttgtgtgaattttaattgtgtacttactatgatatcagataaaaaaatgtaataaatctattcctaatattgtcattcaaattattttgcag

upper sequence: LOC_Os02g02530.3 (Oryza sativa), 5'ss of exon 7
lower sequence: AT2G03120.1 (Arabidopsis thaliana), 5'ss of exon 7
GCTGGCCTCTTTTTCTATGATATTTTCTGGGTTTTCTTCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAGgttagtg----ttctttataagtgattttgactcttgttttgatacaaaatgtctttttctttttacaaaaaaaggctaatctggttatccccttttttctgcatag
|| || || |||||||||||||| |||||||||||||| ||||| |||||||| |||||||| ||||| || ||||| || || |||||||||     | | | | ||||       |  |    || ||| |    ||  || |||||  | |||        ||||||  || |  | | |||  | ||   
GCAGGACTATTTTTCTATGATATCTTCTGGGTTTTCTTTACTCCAGTTATGGTTAGTGTTGCCAAATCCTTCGATGCTCCAATTAAGgttagtaaaaatgcctcaaaagtacacaccataccaaatt-gattc----tgatttgttcttagt-caatttttcagtaatctcattgttacatatttctttcag--

upper sequence: LOC_Os02g02530.3 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 5'ss of exon 8
GCTGGCCTCTTTTTCTATGATATTTTCTGGGTTTTCTTCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAGgttagtgttctttataagt---gattttgactcttg----------ttttgatacaaaatgtctttttctttttacaaaaaaaggctaatctggttatccccttttttctgcatag-------------------------
|| || || ||| | ||||||||||||||||| ||||||||||| || ||||||||||||||||| || || ||||| || || ||||| |||  ||    | |     ||| || |  || |          ||||| | |||  | | |   ||| ||   |  ||      | | |  ||  |    || ||||  ||                           
GCAGGACTTTTTGTTTATGATATTTTCTGGGTCTTCTTCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatccaggtcaactgagatattaatcctggatattctggtttttggttcaatttatttcgctctgttgtaattaatcattaagtttaatttactttattattctaaatgtaataacagttcaattctttttgcag

upper sequence: LOC_Os02g02530.3 (Oryza sativa), 5'ss of exon 7
lower sequence: EFJ18240 (Selaginella moellendorffii), 5'ss of exon 7
GCTGGCCTCTTTTTCTATGATATTTTCTGGGTTTTCTTCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAGgttagtgttctttata-agtgattttgactcttgttttgatacaaaatgtctttttctttttacaaaaaaaggctaatctggttatccccttttttctgcatag
|| || || ||  | ||||| || |||||||| |||||||||||||| |||||||  ||||| || || |||||||| || || |||||| |   |||   |  | ||  |    ||||  |      |   |                                                          
GCCGGGCTATTCGTATATGACATCTTCTGGGTATTCTTCACTCCTGTGATGGTCACCGTTGCGAAGTCCTTTGATGCTCCCATCAAGgtttgctctctcagtgcaatgcatccttctctaatccctccatgcag---------------------------------------------------------

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|58684751|gb|CK073438.1|CK073438
EST:     TCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAG                         CTTCTATTTCCAACAGGAGATGCTGCACGCCCATTCTCTATGCTTGGGCTT
genomic: TCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAGgttagtgttc ... ttctgcatagCTTCTATTTCCAACAGGAGATGCTGCACGCCCATTCTCTATGCTTGGGCTT
EST: gi|29629872|gb|CB634881.1|CB634881
EST:     TGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAG                         CTTCTATTTCCAACAGGAGATGCTGCACGCCCATTCTCTATGCTTGGGCTT
genomic: TGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAGgttagtgttc ... ttctgcatagCTTCTATTTCCAACAGGAGATGCTGCACGCCCATTCTCTATGCTTGGGCTT
EST: gi|87031167|gb|CI259747.1|CI259747
EST:     TGCACCGATAAAG                         CTTCTATTTCCAACAGGAGATGCTGCACGCCCATTCTCTATGCTTGGGCTT
genomic: TGCACCGATAAAGgttagtgttc ... ttctgcatagCTTCTATTTCCAACAGGAGATGCTGCACGCCCATTCTCTATGCTTGGGCTT
EST: gi|29660567|gb|CB656842.1|CB656842
EST:     TCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAG                         CTTCTATTTCCAACAGGAGATGCTGCACGCCCATTCTCTATGCTTGGGCTT
genomic: TCACTCCTGTTATGGTCAGTGTTGCAAAATCATTTGATGCACCGATAAAGgttagtgttc ... ttctgcatagCTTCTATTTCCAACAGGAGATGCTGCACGCCCATTCTCTATGCTTGGGCTT