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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATTTATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAGgtcagtgaacaaacctatctactaattcccattgggcaacagctccttatggaccaaataactgtttcatcag

Basic information

species Oryza sativa
transcript LOC_Os04g58580.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g58580.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G165535_T05 (Zea mays), 5'ss of exon 7
GAATTTATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAGgtcagtgaacaaacctatctactaattcccattgggcaacagctccttatggaccaaataactgttt--catcag------------
||||||||||||||||| ||||||||||||||||||||||| |||||||| ||||||||||| ||  | ||| || |  | ||   ||| | ||  ||||  |||   || |   | ||   |   ||  |            
GAATTTATTAACTTCACTCTTCATTACATTGCTGACTTGGATATCCCAATTAAAAGgtcagtcaattatcctgtccaacagttatgatttg-cattagcttgttagttactattgaccttcataatattggctgattgctcag

upper sequence: LOC_Os04g58580.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA18G46390.1 (Glycine max), 5'ss of exon 7
-GAATTTATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAGgtcagtga-----acaaacctatctac---taattcccattgggcaacagctccttatggaccaaataactgtttcatcag--------------
 || ||||||||||| || |||||||| |||||||| ||||||||||| || || |||| ||||      | | |   || ||    || ||     |  |  | |      |||| | |   |   |  |   | |               
GGAGTTTATTAACTTTACACTTCATTATATTGCTGATTTGGACATCCCCATTAAGAggttagtgggattcagagattaatatatatatatttttagatttgttataatgttatatgaaactgttggttactaattgatataaaatattttta

upper sequence: LOC_Os04g58580.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA09G39800.1 (Glycine max), 5'ss of exon 7
GAATTTATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAGgtcagtgaacaaacctatctactaattcccattgggcaacagctccttatggaccaaataactgtt--tcatcag---------------------
|| ||||||||||| || |||||||| |||||||| ||||||||||| || || |||| ||||            || || ||    ||     |    |  | |||    |   |||||||  | |  |                      
GAGTTTATTAACTTTACACTTCATTATATTGCTGATTTGGACATCCCCATTAAGAGgttagtgggattcagaggttaatattttttttttctagatttgttatgatgttatatgaaactgttggttactaattgatataacaatatttttag

upper sequence: LOC_Os04g58580.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv15s0046g03520.t01 (Vitis vinifera), 5'ss of exon 6
GAATTTATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAGgtcagtgaac---aaacctatctactaattcccattgggcaac-agctccttatggaccaaa--taactgtttcatcag
||| ||||||| ||||| |||||||| |||||||||||||| |||||||| ||||||| ||  ||    ||||||   ||  | ||   | |   ||   || |   || |  ||     ||| |  ||| ||||
GAAATTATTAATTTCACACTTCATTATATTGCTGACTTGGATATCCCAATAAAAAGgttagcaaagcagaaacctgaatagcagttattaatttacatttagattgatacgttcctctcttaatttcttcttcag

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|29627056|gb|CB632067.1|CB632067
EST:     ATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAG                         GGGTACATTCATAGAGTTCCGAAGTGGAATGCTGAATGTGTCGCCCATAGG
genomic: ATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAGgtcagtgaac ... gtttcatcagGGGTACATTCATAGAGTTCCGAAGTGGAATGCTGAATGTGTCGCCCATAGG
EST: gi|58604165|gb|CK014693.1|CK014693
EST:     ATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAG                         GGGTACATTCATAGAGTTCCGAAGTGGAATGCTGAATGTGTCGCCCATAGG
genomic: ATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAGgtcagtgaac ... gtttcatcagGGGTACATTCATAGAGTTCCGAAGTGGAATGCTGAATGTGTCGCCCATAGG
EST: gi|29641676|gb|CB646683.1|CB646683
EST:     ATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAG                         GGGTACATTCATAGAGTTCCGAAGTGGAATGCTGAATGTGTCGCCCATAGG
genomic: ATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAGgtcagtgaac ... gtttcatcagGGGTACATTCATAGAGTTCCGAAGTGGAATGCTGAATGTGTCGCCCATAGG
EST: gi|88846893|gb|CI005872.1|CI005872
EST:     TCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAG                         GGGTACATTCATAGAGTTCCGAAGTGGAATGCTGAATGTGTCGCCCATAGG
genomic: TCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAGgtcagtgaac ... gtttcatcagGGGTACATTCATAGAGTTCCGAAGTGGAATGCTGAATGTGTCGCCCATAGG
EST: gi|8859293|gb|AU096611.1|AU096611
EST:     ATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAG                         GGGTACATTCATAGAGTTCCGAAGTGGAATGCTGAATGTGTCGCCCATAGG
genomic: ATTAACTTCACGCTTCATTACATTGCTGACTTGGACATCCCAATCAAAAGgtcagtgaac ... gtttcatcagGGGTACATTCATAGAGTTCCGAAGTGGAATGCTGAATGTGTCGCCCATAGG