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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaagtttgtttgcagtgcgaatctttttttatctgttcgttttgcaaccttttgtccttagttacctttgtgttgatatattttag

Basic information

species Oryza sativa
transcript LOC_Os05g11140.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G116151_T03 (Zea mays), 5'ss of exon 9
TCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaagtttgtttgcagtgcgaatctttttttatctgttcgttttgcaaccttttgtccttagttacctttgtgttgatat-attttag
||| || || |||||||||||||| || ||||| |||||||| |||||||| |||||||| |||||| | || |||||||||||||||||||||||||||||||| |||||| || | |||| ||| | | | ||||| | | ||| | || |||||||
TCATTTGGGGAGAACTGGAAGCAGGAGGGATGACCTTGAATCTCTTGCCTACACACTTGTATTTCTTCTGCGTGGTCGCCTTCCTTGGCAAGGATACCAGgtgaactttgtt-acaacctccaaattttcttaattactgatccc-----------cccttactcaaattttcagcaaaatgattttag

upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA04G09080.1 (Glycine max), 5'ss of exon 9
TCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaagtttgtttgcagtgcgaatctttttttatctgttcgttttgcaaccttttgtccttagttacctttgtgttgatatattttag
|| | || ||||| || ||||| |||||||| | ||||| ||||| || || ||||| |||||| | || ||||| || |||||||||||||||||||| | || || | | | || |||| || | || || | | | |||| ||| ||||
CCATCTTGGTAGAACAGGTAGCAGGAGAGATGACTTGGAATCTCTTGCTTACACTCTTGTCTTTCTTCTTCGTGGTCGGCTACCTTGGCAAGGATACCAGgttattattccttcaaat---agtcattttagtactaatggtaaatgaaaatatgattcttatgattttttttgttacag--------

upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA08G21570.1 (Glycine max), 5'ss of exon 9
TCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaagtttgtttgcagtgcgaatctttttttatctgttcgttttgcaaccttttgtccttagttacctttgtgttgatatattttag
|| ||||| ||||||| |||||| || ||||| | ||||| ||||| |||||||| |||||||| | || ||||||||||| ||||| || | |||||| || | | | |||||| | |||| | | | | || ||| ||| |
ACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTTCGAGGTCGCCTTCCATGGCAGGGGTTCCAGgttgga--------cattaaaataactcttttattcttacgttcagaaggttggtctctaacattatttttttag-------------

upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA07G01890.1 (Glycine max), 5'ss of exon 9
TCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaagtttgtttgcagtgcgaatctttttttatctgttcgttttgcaaccttttgtccttagttacctttgtgttgatatattttag
|| ||||| ||||||| |||||| || ||||| | ||||| ||||| |||||||| |||||||| | || ||||||||||||||||| || | |||||| | || | || | |||||| | || || || || ||| || | || | |
ACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTTCGAGGTCGCCTTCCTTGGCAGGGTTTCCAGgttggacatatt---aaaatgattgaagttttat-tattatgttcagaattgttggtctctaac-attattttctcag----------

upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 5'ss of exon 9
TCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaa--gtttgtttgc--agtgcgaatctttttttatctgttcgttttgcaaccttttgtcct--tagttacctttgtgttgatatattttag
|||| | ||||| ||||||||||||||||||||| | ||||| ||||| || || || |||||||| | || || || || ||||||||||| |||||||| | |||| | | | || || |||||| || | | | || | || || | || | | || |
TCACCTTGGAAGGACTGGAAGCAGAAGAGATGATTTGGAATCTCTTGCTTACACCCTCATTTTTCTTCTCCGTGGACGGCTGCCTTGGCAAGGTTACCAGgttgacagtttccaaacttaaataggattttcttttatgtgatt-ctgtacatcattctgaaccaacagcttctttag----------------

upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ13521 (Selaginella moellendorffii), 5'ss of exon 9
TCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaagtttgtttgcagtgcgaatctttttttatctgttcgttttgcaaccttttgtccttagttacctttgtgttgatatattttag
||| | || ||||| || || ||||| || ||||| ||||| |||||||| || || | || | |||||||||| |||||||||||||| |||||||| | || | | | || || ||| | || | | | ||
GCACCTGGGTAGAACCGGTAGTAGAAGGGACGATCTGGAATCTCTTGCCTACACGCTGATATTCTTACTACGGGGTCGTCTTCCTTGGCAAGGTTACCAGgttagaggctttggttttaaaa-----ttattgcctgcagctaaggctgcttgggttgtgcag-------------------------

upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ38433 (Selaginella moellendorffii), 5'ss of exon 7
TCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaagtttgtttgcagtgcgaatctttt--tttatctgttcg-ttttgcaaccttttgtccttagttacctttgtgttgatatattttag
|| || || | ||||| || ||| |||||||||| ||||| |||| || || || || ||||| | || ||||| ||||||||||||||||||||||| | | | ||| | | | || | |||| || || |||| |
ACATTTGGGTCGTACTGGCAGTAGACGAGATGATCTGGAATCTCTTGGATACACGCTGGTGTTTCTCCTTCGTGGTCGGCTTCCTTGGCAAGGATACCAGgtcaggctgttttaatatattagttttatgttttacatgggcgcttttatag---------------------------------------

upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ19085 (Selaginella moellendorffii), 5'ss of exon 7
TCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaagtttgtttgcagtgcgaatctttttttatctgttcgttttgcaaccttttgtccttagttacctttgtgttgatatattttag
||| | || ||||| || || ||||| || ||||| ||||| |||||||| || || | || | |||||||||| |||||||||||||| |||||||| | || | | | || || ||| | || | | |||| |
GCACCTGGGTAGAACCGGTAGTAGAAGGGACGATCTGGAATCTCTTGCCTACACGCTGATATTCTTACTACGGGGTCGTCTTCCTTGGCAAGGTTACCAGgttagaggctttggttttaaaa-----ttattgcctgcagctaaggctgcttgttgtgcag---------------------------

upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 7
TCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaagtttgtttgcagtgcgaatctttttttatctgttcgttttgcaaccttttgtccttagttacctttgtgttgatatattttag
|| || || | ||||| || ||| |||||||||| ||||| |||| || || || || ||||| | || ||||| ||||||||||||||||||||||| | | | ||| || || ||| |||| || ||||| |
ACATTTGGGTCGCACTGGCAGTAGACGAGATGATCTGGAATCGCTTGGATACACGCTAGTGTTTCTCCTTCGTGGTCGGCTTCCTTGGCAAGGATACCAGgtcaggctgtttta------atattttagttttattgttttacatgggcgcttttatag-----------------------------

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|29681938|gb|CB678213.1|CB678213
EST:     ATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAG                         GGAGAGAATAAAGGTTTCCTTGTTTGCAAG
genomic: ATACACTTGTTTTTCTTTTACGGGGTCGCCTTCCTTGGCAAGGATACCAGgtgaagtttg ... tatattttagGGAGAGAATAAAGGTTTCCTTGTTTGCAAG