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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATCTGTTTTTATGCATACTCCCCAACAATTTGCTATGCCTTCACGGCCAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAGgtttgtatccgtactttagatccttgtcgcttttctcattgttcaagttgaattgatgtactacaagaaatatcattgtagaggtgcgtgaagttattga...

Basic information

species Oryza sativa
transcript LOC_Os09g39462.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g39462.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G103345_T01 (Zea mays), 5'ss of exon 3
GTCATCTGTTTTTATGCATACTCCCCAACAATTTGCTATGCCTTCACGGCCAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAGgtttgtatccgtacttta--gatccttgtcgcttttctcattgttcaagttgaattgatgtactacaagaaatatcattgtagaggtgcgtgaagttattga--
 || |||||||| |||||| || | || |||| |||||| ||||| || || |||||| ||| || ||||||||||||| | ||| | |||||||||||||| ||||| || | |||      | |||| | |  | | |  ||| |  |   || || ||| ||  | | |     || |  |    |   |  |  |||   
ATCGTCTGTTTTCATGCATGCTTCACAGCAATATGCTATACCTTCTCGCCCTGGAGTCCCATTTGCACATCCACAGGAATCAATGGGACCATTTGCACAGgtctgtatgcgcattttttcatcctttgttgatcatattaa-gttgacatctgatcga-gtattattatagaagc--ttatgaatacacagtatatggttggtc

upper sequence: LOC_Os09g39462.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G009575_T01 (Zea mays), 5'ss of exon 4
GTCATCTGTTTTTATGCATACTCCCCAACAATTTGCTATGCCTTCACGGCCAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAGgtttgtatccgtactttagatccttgt----cgcttttctcattgtt--caagttgaattgatgtactacaagaaatatcattgtagaggtgcgtgaagttattga
 ||||||||||| |||||| || | || |||| ||| || |||||||| || |||||  ||| |||||||||||||||| ||||| | ||||||||||| || ||||| |||  |||    |  |||    |  ||   || |||||  ||   ||| || || |  | |  ||  ||| ||| |||| |    || |   |    
ATCATCTGTTTTCATGCATGCTTCACAGCAATATGCCATACCTTCACGCCCTGGAGTTCCATTTGTACATCCACAGGAATCCATGGGACCATTTGCACAAgtatgtatgcgttttttcatcctatgtgattcagttcgttctttgttaccatactgagttaatat-ttgctcgag-tattattatagaagcttatggataca----
















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|163926013|gb|EG712317.1|EG712317
EST:     CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAG                         ACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
genomic: CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAGgtttgtatcc ... acttgtgcagACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
EST: gi|44664744|gb|CR278178.1|CR278178
EST:     ATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAG                         ACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCTGATGA
genomic: ATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAGgtttgtatcc ... acttgtgcagACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
EST: gi|58599912|gb|CK010440.1|CK010440
EST:     CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAG                         ACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
genomic: CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAGgtttgtatcc ... acttgtgcagACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
EST: gi|58609649|gb|CK037682.1|CK037682
EST:     CAGTAGTCACATATGTACATCCACAGGAACCCATGGGTGCATTTGCACAG                         ACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
genomic: CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAGgtttgtatcc ... acttgtgcagACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
EST: gi|58660413|gb|CK049093.1|CK049093
EST:     CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAG                         ACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
genomic: CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAGgtttgtatcc ... acttgtgcagACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
EST: gi|66924759|gb|CX111607.1|CX111607
EST:     CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAG                         ACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
genomic: CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAGgtttgtatcc ... acttgtgcagACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
EST: gi|218479471|gb|FG952619.1|FG952619
EST:     CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAG                         ACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA
genomic: CAGGAGTCACATATGTACATCCACAGGAACCCATGCGTCCATTTGCACAGgtttgtatcc ... acttgtgcagACTCACCAACAACAACCTGAAGCTAGTTTGCGCTTAGCCCGGCCCCGATGA