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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacatgtttccaattcttgcacaataacaagtaaatacatgtttccagttttgccattttctagtatgccaagcagtggttctctttaggcttcttgtttcgtcttgatatttggatatctgcattcttgtttgttggtgtag

Basic information

species Oryza sativa
transcript LOC_Os02g43594.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g43594.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G171406_T06 (Zea mays), 5'ss of exon 3
GTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacatgtttccaattcttgcacaataacaagtaaatacatgtttccagttttgccattttctagtatgccaagcagtggttctctttaggcttcttgtttcgtcttgatatttggatatctgcattcttgtttgttggtgtag
|||||||||||||| || |||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||| |||||  || ||||||   | | || || ||  | | |   ||    |   | |||| |  ||||    || ||       |||  || ||    || |  | |  | ||| |    |                               
GTCAAAACAACATCGCCGAGGAAGTATTTCGTCCGGCCGAACGCGAGCATCGTCCAGCCATGGGATTCTTGCACAATAACGAgtaagcacctgtttc---tccatggaccatggcta-tgttta-gcatcctccgtttgg--atttcgatgtgtgagtgtttgtgtctccct----gccttctctcccatctggggggtacag---------------------------

upper sequence: LOC_Os02g43594.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G171406_T02 (Zea mays), 5'ss of exon 3
------------------GTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacatgtttccaattcttgcacaataacaagtaaatacatgtttccagttttgccattttctagtatgccaagcagtggttctctttaggcttcttgtttcgtcttgatatttggatatctgcattcttgtttgttggtgtag
                  |||||||||||||| || |||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||| |||||  || ||||||   | | || || ||  | | |   ||    |   | |||| |  ||||    || ||       |||  || ||    || |  | |  | ||| |    |                               
TGCCCCATTTATTTTCAGGTCAAAACAACATCGCCGAGGAAGTATTTCGTCCGGCCGAACGCGAGCATCGTCCAGCCATGGGATTCTTGCACAATAACGAgtaagcacctgtttc---tccatggaccatggcta-tgttta-gcatcctccgtttgg--atttcgatgtgtgagtgtttgtgtctccct----gccttctctcccatctggggggtacag---------------------------

upper sequence: LOC_Os02g43594.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G074173_T01 (Zea mays), 5'ss of exon 4
GTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacatgtttccaattcttgcacaataacaagtaaatacatgtttccagttttgccattttctagtatgccaagcagtggttc-tctttaggcttcttgtttcgtcttgatatttggatatctgcattcttgtttgttggtgtag
|||||||| |||||||| ||||||||||| |||||||||||||||| ||||||||||||||||||||||||||||||||| |||||| |||  |          | ||   |     ||  |      |   | |||| |    |||    | ||  |||   | || | |||  | || |    |    ||| |   |   |                            
GTCAAAACGACATCACCGAGGAAGTATTTTGTCCGGCCGAACGCGAGCATCGTCCAGCCATGGGATTCTTGCACAATAACGAgtaaaaacacctgcttctcctctccatggttttttgtttagg---atcctccgtttgg----ttttcgatgtgt-aagtgtttgtgcgtctccacgcct----tcctatctgggggtacag----------------------------

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|88401755|gb|CI591082.1|CI591082
EST:     CCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAA                         TTACGCTCCAGGCGCAGAAAGAGTACCCACAAGGTATGCAATGCAAGGATA
genomic: CCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacat ... gttggtgtagTTACGCTCCAGGCGCAGAAAGAGTACCCACAAGATATGCAATGCAAGGATA
EST: gi|88389102|gb|CI595336.1|CI595336
EST:     CCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAAAAA                         TTACGCTCCAGGCGCAGAAAGAGTACCCACAAGATATGCAATGCAAGGATA
genomic: CCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacat ... gttggtgtagTTACGCTCCAGGCGCAGAAAGAGTACCCACAAGATATGCAATGCAAGGATA
EST: gi|88405086|gb|CI685534.1|CI685534
EST:     CCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAA                         TTACGCTCCAGGCGCAGAAAGAGTACCCACAAGATATGCAATGCAAGGATA
genomic: CCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacat ... gttggtgtagTTACGCTCCAGGCGCAGAAAGAGTACCCACAAGATATGCAATGCAAGGATA
EST: gi|88581198|gb|CI698173.1|CI698173
EST:     CCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAA                         TTACGCTCCAGGCGCAGAAAGAGTACCCACAAGATATGCAATG
genomic: CCGGCCGAACGCGAACATCGTCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacat ... gttggtgtagTTACGCTCCAGGCGCAGAAAGAGTACCCACAAGATATGCAATG