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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAGGAGAAGGTGGTGAAATTGTGTTTGGAGGAATGGATCCTAGCCACTACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctgtttctgctaagttctgtagtgttttcgacatttgatgtaatgtttgcattgactttgtgcag

Basic information

species Oryza sativa
transcript LOC_Os05g49200.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g49200.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G001713_T01 (Zea mays), 5'ss of exon 2
TGAAGGAGAAGGTGGTGAAATTGTGTTTGGAGGAATGGATCCTAGCCACTACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctgtttctgctaagttctgtagtgttttcgacatttgatgtaatgtttgcattgactttgtgcag-------------
|||||||||||||||||||||||| ||||| ||||||||| ||||||||||||||||  | || || | ||| |||||| ||| ||||||||| ||||||||||||  | | | |  |   |||| || |   || |   || ||    || | |   || |   ||| ||              
TGAAGGAGAAGGTGGTGAAATTGTATTTGGTGGAATGGATTCTAGCCACTACAAGGGTGATCACACGTTTGTCCCAGTCACTCGGAAGGGATACTGGCAGgttggtttt-tgtttcttgtattctctaataactttgtttttcgaatgtatatatcggtttaaagtgtacaatttgttgatgtag

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G065757_T02 (Zea mays), 5'ss of exon 6
TGAAGGAGAAGGTGGTGAAATTGTGTTTGGAGGAATGGATCCTAGCCACTACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctgtttctgctaagttctgtagtgttttcgacatttgatgtaatgtttgcattgactttgtgcag-------------
|||||||||||||||||||||||||||||| ||||||||| ||||||||||||||||  | || || | ||| |||||| ||| ||||||||| ||||||||||||  | | | |  |   |||| || |   || |   || ||    || | |   || |   ||| ||              
TGAAGGAGAAGGTGGTGAAATTGTGTTTGGTGGAATGGATTCTAGCCACTACAAGGGTGATCACACGTTTGTCCCAGTCACTCGGAAGGGATACTGGCAGgttggtttt-tgtttcttgtattctctaataactttgtttttcgaatgtatatatcagtttaaagtgtacaatttgttgatgcag

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM5G899123_T01 (Zea mays), 5'ss of exon 1
TGAAGGAGAAGGTGGTGAAATTGTGTTTGGAGGAATGGATCCTAGCCACTACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctgtttctgctaagttctgtagtgttttcgacatttgatgtaatgtttgcattgactttgtgcag-------------
|||||||||||||||||||||||| ||||| ||||||||| ||||||||||||||||  | || || | ||| |||||| ||| ||||||||| ||||||||||||  | | | |  |   |||| || |   || |   || ||    || | |   || |   ||| ||              
TGAAGGAGAAGGTGGTGAAATTGTATTTGGTGGAATGGATTCTAGCCACTACAAGGGTGATCACACGTTTGTCCCAGTCACTCGGAAGGGATACTGGCAGgttggtttt-tgtttcttgtattctctaataactttgtttttcgaatgtatatatcggtttaaagtgtacaatttgttgatgcag

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA09G00810.1 (Glycine max), 5'ss of exon 5
TGAAGGAGAAGGTGGTGAAATTGTGTTTGGAGGAATGGATCCTAGCCACTACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctgtt---tctgctaagt-tctgta-------gtgttttcgacatttgatgtaatgtttgcattgactttgtgcag-----------------
 ||||   | || || ||  |||| ||||||||    ||||||   |||||||||||||| ||||| ||||| |||||  | | ||| ||||||||||||||| ||         | || |  || ||   |        |  ||      | ||||||| | ||     |||  | ||  |                  
AGAAGAGAATGGGGGGGAGCTTGTTTTTGGAGGTGCTGATCCTGCTCACTACAAGGGCAAACATACTTATGTACCAGTTACACGGAAAGGATATTGGCAGgttagtatcaacaaatttgtttggtatcaacatatcaacatacttgtactctgtgatgtattattaatcctgaaatagttgactacctggtattaactat

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT1G11910.1 (Arabidopsis thaliana), 5'ss of exon 6
TGAAGGAGAAGGTGGTGAAATTGTGTTTGGAGGAATGGATCCTAGCCACTACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctgtttctgctaagttctgtagtgttttcg--acatttgat-gtaatgtttgcattgactttgtgcag------------
||||| ||||||||||||| |||| ||||||||  | ||||| |  || | ||||||||| |||||||||||||| ||  | || ||||| || ||||||||| ||  |   ||  ||   || | | || || ||   || |||    || | | |   | | |   | |  |             
TGAAGAAGAAGGTGGTGAACTTGTATTTGGAGGTGTTGATCCAAATCATTTCAAGGGCAAACATACATATGTTCCTGTGACACAAAAGGGCTACTGGCAGgtttgtgatacatc-acttccttgtctggttttctcataacgttttccagtgacgatctaactcaagctatatatattttgttatag

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|33795396|gb|CF323568.1|CF323568
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|29687282|gb|CB683557.1|CB683557
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|58668482|gb|CK057168.1|CK057168
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|33683538|gb|CF311777.1|CF311777
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|58596651|gb|CK007179.1|CK007179
EST:     ACAATGGCAACCATACATATGTTCCAGTCTCTCACAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|125863426|gb|EL586708.1|EL586708
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|29675128|gb|CB671403.1|CB671403
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|117249803|gb|CT863399.1|CT863399
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|58658759|gb|CK047439.1|CK047439
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|86908029|gb|CI298797.1|CI298797
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|58668099|gb|CK056785.1|CK056785
EST:     GAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: GAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|29657722|gb|CB653997.1|CB653997
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAAGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|29660989|gb|CB657264.1|CB657264
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|29627821|gb|CB632832.1|CB632832
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|55827430|gb|AU030192.2|AU030192
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|29660449|gb|CB656724.1|CB656724
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGA
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGA
EST: gi|29677506|gb|CB673781.1|CB673781
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGA
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGA
EST: gi|218478948|gb|FG952780.1|FG952780
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|218480608|gb|FG959514.1|FG959514
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|58681561|gb|CK070248.1|CK070248
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|29636406|gb|CB641415.1|CB641415
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGA
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGA
EST: gi|29644200|gb|CB649207.1|CB649207
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|218495569|gb|FG950148.1|FG950148
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|88396547|gb|CI601030.1|CI601030
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGGGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|86847366|gb|CI286963.1|CI286963
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|33381232|gb|CF196575.1|CF196575
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|218481767|gb|FG945139.1|FG945139
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|218486960|gb|FG945468.1|FG945468
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|218484121|gb|FG947440.1|FG947440
EST:     GGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: GGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|29639939|gb|CB644948.1|CB644948
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|428757|gb|D24912.1|D24912
EST:     ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTNATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
EST: gi|66924030|gb|CX110878.1|CX110878
EST:     ACAAGGGCGACGATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAG                         TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG
genomic: ACAAGGGCAACCATACATATGTTCCAGTCTCTCAGAAGGGATATTGGCAGgttggtcctg ... ctttgtgcagTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG