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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCCTCCTCAATGCGATTGCCAACCAGCTGCGCTATCCAAACAACCACACACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatgattacttactatgtggtctcctttttttgtttgtatgcaaatatacaccctttctgatgggaactaaatctgaaatcgcag

Basic information

species Oryza sativa
transcript LOC_Os10g40780.1
intron # 49
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g40780.3 (Oryza sativa), 5'ss of exon 46
lower sequence: GRMZM2G101007_T01 (Zea mays), 5'ss of exon 1
---------CCTCCTCCTCAATGCGATTGCCAACCAGCTGCGCTATCCAAACAACCACACACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatgattacttactatgtggtctcctttttttgtttgtatgcaaatatacaccctttctgat---gggaactaaatctgaaatcgcag---------
         | |  | |||||||||||||| |||||||| ||||||||||| | ||| || |||||         ||| ||||| ||| ||||| | ||||||| ||||||||    |     ||    |         | |||   | | || ||  ||| |  |   | | ||||    | || ||| |     |||             
AGGCCGCTACATTATTCTCAATGCGATTGCTAACCAGCTTCGCTATCCAAATAGCCATACCCACTA---------CATCATTCTGTACCTGTTTGCCGAGGCAACCCAGgtatt---taggccctccagacacttcgctcctttagagctagtttgttaatttttagggtgtttgattttagaaattaactagtccatcatcttctaactcc

upper sequence: LOC_Os10g40780.3 (Oryza sativa), 5'ss of exon 46
lower sequence: EFJ17138 (Selaginella moellendorffii), 5'ss of exon 38
CCTCCTCCTCAATGCGATTGCCAACCAGCTGCGCTATCCAAACAACCACACACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatgattacttactatgtggtctcctttttttgtttgtatgcaaatat-acaccctttctgatgggaactaaatctgaaatcgcag
| |  ||||||| || || ||||||||||| ||||||||||||||||| || || || || || | | |  | || ||||||||  | || || | |||||||       |    |   | |||| ||| || | |  | |      |||   |  | |  |   | |  | |                   
CTTGTTCCTCAACGCCATCGCCAACCAGCTCCGCTATCCAAACAACCATACGCATTACTTCTCGTGCGTGTTGCTCTACTTGTTCGCCGAAGCCAGCCAGgta-------agctttccttttgtgctcttctatgtaggctctagctcaatccttgcgctttgcttcaaagcag------------------

upper sequence: LOC_Os10g40780.3 (Oryza sativa), 5'ss of exon 46
lower sequence: EFJ31209 (Selaginella moellendorffii), 5'ss of exon 38
CCTCCTCCTCAATGCGATTGCCAACCAGCTGCGCTATCCAAACAACCACACACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatgattacttactatgtggtctcctttttttgtttgtatgcaaatat-acaccctttctgatgggaactaaatctgaaatcgcag
| |  ||||||| || || ||||||||||| ||||||||||||||||| || || || || || | | |  | || ||||||||  | || || | |||||||       |    |   | |||| |||  | | |  | |      |||   |  | |  |   | |  | |                   
CTTGTTCCTCAACGCCATCGCCAACCAGCTCCGCTATCCAAACAACCATACGCATTACTTCTCGTGCGTGTTGCTCTACTTGTTCGCCGAAGCCAGCCAGgta-------agctttccttttgtgctcttttatgtaggctctagctcaatccttgcgctttgcttcaaagcag------------------

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|29644838|gb|CB649845.1|CB649845
EST:     CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
genomic: CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
EST: gi|29686205|gb|CB682480.1|CB682480
EST:     CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGTTAATAGTT
genomic: CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
EST: gi|9886370|gb|BE607462.1|BE607462
EST:     CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGACTAATAGTT
genomic: CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
EST: gi|29686204|gb|CB682479.1|CB682479
EST:     CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
genomic: CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
EST: gi|29616068|gb|CB621080.1|CB621080
EST:     CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
genomic: CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
EST: gi|58670528|gb|CK059214.1|CK059214
EST:     CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
genomic: CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
EST: gi|29674319|gb|CB670594.1|CB670594
EST:     CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
genomic: CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
EST: gi|89198422|gb|CI007482.1|CI007482
EST:     CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
genomic: CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
EST: gi|29629738|gb|CB634747.1|CB634747
EST:     CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
genomic: CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
EST: gi|29629914|gb|CB634923.1|CB634923
EST:     CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
genomic: CACACTATTTTTCCTTCATAATTCTTTACTTGTTTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
EST: gi|88220672|gb|CI220232.1|CI220232
EST:     TTTCTGAGGCAAACCAG                         GAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT
genomic: TTTCTGAGGCAAACCAGgtatcggatg ... gaaatcgcagGAAATAGTCCAGGAGCAAATAACTAGGGTACTTCTGGAACGGCTAATAGTT