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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTTACTATGATATAAGGTCAGCGCTGAATGCCAAGATGGAGCTTCAAAACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatcaaatcatcaattgccacttaactgaaaatgcttatctgcattttctgttgcctgttcttgtgcttagaatgttattattctagatattcactaaaattgagcacatttgcttttctttccccacag

Basic information

species Oryza sativa
transcript LOC_Os02g31290.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G459746_T01 (Zea mays), 5'ss of exon 6
ATCTTACTATGATATAAGGTCAGCGCTGAATGCCAAGATGGAGCTTCAAAACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatcaaatcatcaattgccacttaactgaaaatgcttatctgcattttctgttgcctgttcttgtgcttagaatgttattattctagatattcactaaaattgagcacatttgcttttctttccccacag
|||||||||||| ||||||||| |   |||||||| || ||  |||||||||||| |||| || | ||| ||||||||||||||||| |||||||||||||||  || | | ||     || |    |   ||   |  | ||| |         | |||| ||   |||   |||  |  | ||||     |  ||        ||| ||  |||| |   | ||| |||  ||
ATCTTACTATGACATAAGGTCATCATGGAATGCCATGAGGGCACTTCAAAACAAGCCACTAAGACATAGAAAACTTGACATACATTACTCCATTCCGAAGgtattca-cgagtc-----ttactggcttgatgtgtagacatattt-tgcccaaggatgccagt--atgtagctagtttactgttatc----agttttgtagttcttgtgctaattttcaccttttttcccttag

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA04G37810.1 (Glycine max), 5'ss of exon 4
ATCTTACTATGATATAAGGTCAGCGCTGAATGCCAAGATGGAGCTTCAAAACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatcaaatcatcaattgccacttaactgaaaatgcttatctgcattttctgttgcctgttcttgtgcttagaatgtt-attattctagatattcactaaaattgagcacatttgcttttctttccccacag-----------------------------------------------------------
 ||||| |||||| ||||| |||| |  ||||| | ||  |  |||||||| | | || ||||   |||||||||||| ||||||||||| ||||| |||||| |      || || |||  |  || |       |||| ||  | | |||||  |  | | ||  |    ||   || || ||| |||   ||||    ||  |||     ||| || ||| |||   | |  |                                                           
TTCTTATTATGATCTAAGGGCAGCACAAAATGCAATGAAAGCACTTCAAAATAGGTCATTGAGATCTAGGAAACTTGATATACATTATTCAATTCCAAAGgtatc------attattaataacttctcatgc----atgcataattcctttttccttgtcattttgataaagttgttatttttattcttcatcatatcatttattattaccgccatatgttttgcttgttcaattgcttgcatgcctgtttttatggtttgcttatagatatatcttgatttgatgacatgtcag

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA06G17250.1 (Glycine max), 5'ss of exon 4
ATCTTACTATGATATAAGGTCAGCGCTGAATGCCAAGATGGAGCTTCAAAACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatcaaatcatcaattgccacttaactgaaaatgcttatctgc-attttctgttgcctgttcttgtgcttagaatgttattattctagatattcactaaaattgagcacatttgcttttctttccccacag-----------------------------------------------------------
 ||||| |||||| ||||| |||| |  ||||| | ||  |  |||||||| | | || ||||   |||||||||||| ||||||||||| ||||| |||||| |  |  ||| |    ||  ||  ||     || | ||| ||      | ||  ||   |    ||||  |||   | || ||  |||    ||    ||  |||     ||| || ||| |||     |  |                                                           
TTCTTATTATGATCTAAGGGCAGCACAAAATGCAATGAAAGCACTTCAAAATAGGTCATTGAGATCTAGGAAACTTGATATACATTATTCAATTCCAAAGgtatcattttaataac---ttctcatgtatgcataattccttttcccttgctgtcatttagataaagttgttattat--tattcttcatcttatcatcttttattattaccgccatatgttttgcttgtttaattgcttgcatgcctgtttttatgctttgcttatagatatatcttgatttgatgacatatcag

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA08G01040.1 (Glycine max), 5'ss of exon 6
ATCTTACTATGATATAAGGTCAGCGCTGAATGCCAAGATGGAGCTTCAAAACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgta----accatcaaatcatc----------aattgccacttaactgaaaatgcttatctgcatttt-ctgttgcc--tgttcttgtg--cttagaatgttattattctagatattcactaaaattgagca--catttgcttttctttccccacag-------------
 |||||  | ||| ||||| |||| |  ||||| | |   |  |||||||| | | || || ||  |||||||||||| ||||||||||| ||||| ||||||    |  |  || | |||          |||| |   |  | ||  |    ||   |  | ||  ||| |     ||||||| |   ||||| | |||| |||| ||  |||   ||    ||   ||   | || || ||| | |     |              
TTCTTATCAAGATCTAAGGGCAGCACAAAATGCAATGCAAGCACTTCAAAATAGGCCATTGGGGTCTAGGAAACTTGATATACATTATTCAATTCCAAAGgtataatattaataacttatcttgtatgcataattccatttccattgctatcatttggataaaattggctgctattgttgttcttatcatcttagca-gttagtattataactatgtgctttgctttttcaattactttctcttcctactttttacactttggttatag

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA04G37810.2 (Glycine max), 5'ss of exon 2
ATCTTACTATGATATAAGGTCAGCGCTGAATGCCAAGATGGAGCTTCAAAACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatcaaatcatcaattgccacttaactgaaaatgcttatctgcattttctgttgcctgttcttgtgcttagaatgtt-attattctagatattcactaaaattgagcacatttgcttttctttccccacag--------------------------------
 ||||| |||||| ||||| |||| |  ||||| | ||  |  |||||||| | | || ||||   |||||||||||| ||||||||||| ||||| |||||| |      || || |||  |  || |       |||| ||  | | |||||  |  | | ||  |    ||   || || ||| |||   ||||    ||  |||     ||| || ||| |||   | |  |                                
TTCTTATTATGATCTAAGGGCAGCACAAAATGCAATGAAAGCACTTCAAAATAGGTCATTGAGATCTAGGAAACTTGATATACATTATTCAATTCCAAAGgtatc------attattaataacttctcatgc----atgcataattcctttttccttgtcattttgataaagttgttatttttattcttcatcatatcatttattattaccgccatatgttttgcttgttcaattgcttgcatgcctgtttttatggtttgcttatag

upper sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv01s0150g00090.t01 (Vitis vinifera), 5'ss of exon 7
ATCTTACTATGATATAAGGTCAGCGCTGAATGCCAAGATGGAGCTTCAAAACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatcaaatcatcaattgccacttaactgaaaatgcttatctgcattttctgttgcctgttcttgtgcttagaatgttattattctagatattcactaaaattgagcacatttgcttttctttccccacag
 || || |||||||||||  |||| |  ||||| | ||  |  || || |||||  || ||||||||||||| |||||||| |||||||| ||||| |||||         ||  |  |||  ||    |   | |     |    ||||||  || |   || |   ||  |    ||||||   || ||| ||| ||||      ||  |                       
CTCATATTATGATATAAGAGCAGCCCGAAATGCAATGAGAGCACTCCAGAACAAACCATTGAGGCGTAGGAAGCTTGACATTCATTATTCTATTCCAAAGgtg------tgatactttattttcatcctatgtagagcatgtg---gcatttcttgct--ttgattaagtaatcctcatgttagctttgtagttat-cacttgttaggataa-----------------------

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|29628170|gb|CB633181.1|CB633181
EST:     ACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAG                         GACAATCCTTCGGAGAAAGATATTAACCAGGGAACTATTGTACTTTTTAAC
genomic: ACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatca ... ttccccacagGACAATCCTTCGGAGAAAGATATTAACCAGGGAACTATTGTACTTTTTAAC
EST: gi|29644611|gb|CB649618.1|CB649618
EST:     ACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAG                         GACAATCCTTCGGAGAAAGATATTAACCAGGGAACTATTGTACTTTTTAAC
genomic: ACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatca ... ttccccacagGACAATCCTTCGGAGAAAGATATTAACCAGGGAACTATTGTACTTTTTAAC
EST: gi|29628253|gb|CB633264.1|CB633264
EST:     ACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAG                         GACAATCCTTCGGAGAAAGATATTAACCAGGGAACTATTGTACTTTTTAAC
genomic: ACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatca ... ttccccacagGACAATCCTTCGGAGAAAGATATTAACCAGGGAACTATTGTACTTTTTAAC
EST: gi|29629461|gb|CB634470.1|CB634470
EST:     ACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAG                         GACAATCCTTCGGAGAAAGATATTAACCAGGGAACTATTGTACTTTTTAAC
genomic: ACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatca ... ttccccacagGACAATCCTTCGGAGAAAGATATTAACCAGGGAACTATTGTACTTTTTAAC
EST: gi|58605539|gb|CK033572.1|CK033572
EST:     ACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAG                         GACAATCCTTCGGAGAAAGATATTAACCAGGGAGGCTATTGTACTTTTTAA
genomic: ACAAGGCACTGAGGCGTAGGAAACTTGACATACATTATTCCATTCCGAAGgtaaccatca ... ttccccacagGACAATCCTTCGGAGAAAGATATTAACCAGGGAA-CTATTGTACTTTTTAA