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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGAAATCCATGAAGCTGGGACTTTTACCTACCGAAGTGATGTTTACAGTTTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgattcaccgtaatatgcatttcttaattttagtttcataattgtgttagatcaattgtctccaaatgttgtctgaactttctagtttgcttgcttattttccgttacaatatgcag

Basic information

species Oryza sativa
transcript LOC_Os02g07960.2
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g07960.2 (Oryza sativa), 5'ss of exon 15
lower sequence: GRMZM2G335638_T01 (Zea mays), 5'ss of exon 15
CTGAAATCCATGAAGCTGGGACTTTTACCTACCGAAGTGATGTTTACAGTTTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgattcaccgtaatatgcatttcttaattttag--tttcataattgtgttagatcaattgtctccaaatgttgtctgaactttctagtttgcttgcttattttccgttacaatatgcag
|||||||||||||| ||| | |||||||    | ||| || || || ||||| || ||||| |||||||||||||| ||||| ||||| |||||||||||||||| ||| ||  | ||||||||| | | ||    ||  |||   |||| | ||  |||| || ||||| ||   |   |     || |||  | |||  ||||     |||  |||||||||
CTGAAATCCATGAATCTGAGCCTTTTACTCGTCAAAGCGACGTATATAGTTTGGGTGTGGTGATGCTAGAACTTCTTACTGGTCGTAAGCCATATGACAGgtcagagatccattgcaatatgcatgt-tgaacaagagccttttgcaattat-ttgaatcacttctctcctaaaaattcat-----ttttag--tacttctttat-----gttggaatatgcag

upper sequence: LOC_Os02g07960.2 (Oryza sativa), 5'ss of exon 15
lower sequence: GRMZM2G124270_T01 (Zea mays), 5'ss of exon 1
CTGAAATCCATGAAGCTGGGACTTTTACCTACCGAAGTGATGTTTACAGTTTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgattcaccgtaatatgcatttcttaattttagtttcat--aattgtgttagatcaattgtctccaaatgttgtctgaactttctagtttgcttgcttattttccgttacaatatgcag
|||||||||||||  ||| | |||||||  | || || || || || ||||| || ||||| |||||||||||||| ||||| ||||| |||||||||||||||| ||| ||  ||||||||||| | | ||    || ||  |  |||| | ||  |||| || ||||| ||         ||||   |      |||  ||||     |||  |||||||||
CTGAAATCCATGACTCTGAGCCTTTTACTCAGCGCAGCGACGTATATAGTTTCGGTGTGGTGATGCTAGAACTTCTTACTGGTCGTAAGCCATATGACAGgtcagagatccattgtaatatgcatgt-taaacaagagcttttttcaattat-ttgaatcacttctctcctaa--------aaactcatttcacaacttctttat-----gttggaatatgcag

upper sequence: LOC_Os02g07960.2 (Oryza sativa), 5'ss of exon 15
lower sequence: GLYMA15G07520.1 (Glycine max), 5'ss of exon 15
CTGAAATCCATGAAGCTGGGACTTTTACCTACCGAAGTGATGTTTACAGTTTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgattcacc--gtaatatgcatttcttaatt--ttagtttcataattgtgt-tagatcaattgtctccaaatgttgtctgaactttctagtttgcttgcttattttccgttacaatatgcag
||  |     |||  |||| | || |||  | | ||||||||| | ||||||||| || ||||||||||||||||||||||| || ||| | ||||| | || ||| ||||     |||||    ||   |   ||  ||| |     |||  |   || | ||  |      |||   ||| | || | |  | |||   |||| |    || | |||  ||  ||
CTCCAGAATTTGAGTCTGGAAGTTATACGCAGCAAAGTGATGTCTTCAGTTTTGGTGTCGTAATGCTAGAACTTCTCACTGGACGAAAATCTTATGAAAAgtgagtaattccattagtaattaagatagttgtgttcattattccagcaatgatacctaaaccagcttaacagaaaccatgtttaaaatattgaattt---tgctaaaacaccat-acatgatttag

upper sequence: LOC_Os02g07960.2 (Oryza sativa), 5'ss of exon 15
lower sequence: GLYMA13G31780.1 (Glycine max), 5'ss of exon 14
CTGAAATCCATGAAGCTGGGACTTTTACCTACCGAAGTGATGTTTACAGTTTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgattc----accg--taatatgcatttcttaattttagtttc--ataattgtgttagatcaattgtctccaaatgttgtctgaactttctagtttgcttgcttattttccgttacaatatgcag
||  |     |||  |||| | || |||  | | ||||||||| | ||||||||| || |||||||||||||| |||||||| || ||| | ||||||| || ||| ||||    ||    ||| ||   | | || ||| |  ||||  | |||  |   || | ||  |   |||     ||| | || | |  | ||||   ||  |    || |  ||   |  ||
CTCCAGAATTTGAGTCTGGAAGTTATACGCAGCAAAGTGATGTCTTCAGTTTTGGTGTCGTAATGCTAGAACTCCTCACTGGACGAAAATCCTATGACAAgtgagtaattccattactaactaagatagttgtgttcattatcttttccaacaatgataccagcttaacagaagcca-----tgtttaaaatattgaatttg---gcaaaaacaccat-gcatgttttag

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|58669825|gb|CK058511.1|CK058511
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAAGAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|29621906|gb|CB626917.1|CB626917
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|58687945|gb|CK076632.1|CK076632
EST:     TGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|29656568|gb|CB652843.1|CB652843
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|58611356|gb|CK039068.1|CK039068
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|29626065|gb|CB631076.1|CB631076
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|29626028|gb|CB631039.1|CB631039
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|29640907|gb|CB645914.1|CB645914
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|66927345|gb|CX114193.1|CX114193
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|29674397|gb|CB670672.1|CB670672
EST:     TTTGGTGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|29671438|gb|CB667713.1|CB667713
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|29638004|gb|CB643013.1|CB643013
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|29631499|gb|CB636508.1|CB636508
EST:     GCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: GCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
EST: gi|58690978|gb|CK079665.1|CK079665
EST:     TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAG                         TTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT
genomic: TTTGGCGTGGTAATGCTAGAACTTCTCACTGGCCGTAAACCATATGACAGgtcagtgatt ... caatatgcagTTCTCGTCCTCGTGCTGAACAACATCTTGTTAGATGGGCTGATTCTCAATT