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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGCATCAGCTTCCTATCAAGCATTTAGAAGCAACTTAAGTCACGGGGCGTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAGgtgagttctggatatgtctttgtgcttttttttgttaggaaaaaatcttctttggttcatctatactcgaccttatcatatgttccatttctagggtatcttgctacctgccctttgcaatgttaagtttttgtatattggttataactgaccatttttgtag

Basic information

species Oryza sativa
transcript LOC_Os01g40340.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g40340.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G149321_T01 (Zea mays), 5'ss of exon 1
TTGGCATCAGCTTCCTATCAAGCATTTAGAAGCAACTTAAGTCACGGGGCGTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAGgtgagttctggatatgtctttgtgcttttttttgttaggaaaaaatcttctttggttcatctatactcgaccttatcatatgttccatttctagggtatcttgctacctgccctttgcaatgttaagtttttgt---atattggttataactgaccatttttgtag-------------------------------
 | ||||||||||| ||||||||||| ||||||||||||||||| ||||| |||||||| |||||||||||||| ||||||||||||||||| ||  |||||||||  ||||||| || | |    ||| |||| |  |||  |   | |||    | || ||||   | |||||  |  ||    |||  || | || |||||| | |      ||   |   || | | ||    | |  | || | | |    || ||||| |                               
CTAGCATCAGCTTCGTATCAAGCATTCAGAAGCAACTTAAGTCATGGGGCATTGGTCACAGCCAGTCCAGAGACAGTTGATGGCATGCTTGACAGTTTAGgtgagtgttggatatttcat-gcatatttatttggtttgaagcatcttgcttca--taatttata---ggccttaggacttgggaaatta-tatgctaccttgcttcataattggtgggcttagaaatatatgctggacaccgattcttattctatatatttgttgatttattggtatgactgacataagtttttag

upper sequence: LOC_Os01g40340.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G470292_T01 (Zea mays), 5'ss of exon 10
TTGGCATCAGCTTCCTATCAAGCATTTAGAAGCAACTTAAGTCACGGGGCGTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAGgtgagttctggatatgtctt-tgtgcttttttttgttaggaaaaaatcttctttggttcat-------------ctatactcgaccttatcatatgttccatttctagggtatcttgctacctgccctttgcaatgttaagtt--tttgtatattggttataactgac-catttttgtag
 | ||||||||||| ||||||||||| | ||||||||||||||| ||||| |||||||  |||||||||||||| |||||||| ||||||||||| ||||||||||  | ||||| || |   |  || |||   ||  || |   |  |   |  ||  |               |||    | ||| |   ||          |||       |||||       |||  |||  ||  ||  ||  | |||||||| | ||||||  |  |||  ||
CTAGCATCAGCTTCGTATCAAGCATTCAAAAGCAACTTAAGTCATGGGGCATTGGTCATGGCCAGTCCAGAGACAGTTGATGGTATGCTTGAGAGTCTAGgtgagtgttagatatttcatgcatatttatttcatttgcgacatcttgcttcataatttgtaagacttaggaaatcatatgttatcttgtttcataactgggccttagaaatgtatgctagacaatgtttcaaattctatattcgttgatttattggtt-tgactgacataagttttcag
















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|58693869|gb|CK082556.1|CK082556
EST:     GTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAG                         GCAATTTGCTGAAGTTATTGGATACTTCTGGTGCTGAAAATGTTTTGCCTA
genomic: GTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAGgtgagttctg ... atttttgtagGCAATTTGCTGAAGTTATTGGATACTTCTGATGCTGAAAATGTTTTGCCTA
EST: gi|29612947|gb|CB617960.1|CB617960
EST:     GTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAG                         GCAATTTGCTGAAGTTATTGGATACTTCTGGTGCTGAAAATGTTTTGCCTA
genomic: GTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAGgtgagttctg ... atttttgtagGCAATTTGCTGAAGTTATTGGATACTTCTGATGCTGAAAATGTTTTGCCTA
EST: gi|58672704|gb|CK061390.1|CK061390
EST:     GTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAG                         GCAATTTGCTGAAGTTATTGGATACTTCTGGTGCTGAAAATGTTTTGCCTA
genomic: GTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAGgtgagttctg ... atttttgtagGCAATTTGCTGAAGTTATTGGATACTTCTGATGCTGAAAATGTTTTGCCTA
EST: gi|58689270|gb|CK077957.1|CK077957
EST:     GTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAG                         GCAATTTGCTGAAGTTATTGGATACTTCTGGTGCTGAAAATGTTTTGCCTA
genomic: GTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAGgtgagttctg ... atttttgtagGCAATTTGCTGAAGTTATTGGATACTTCTGATGCTGAAAATGTTTTGCCTA
EST: gi|29669991|gb|CB666266.1|CB666266
EST:     GTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAG                         GCAATTTGCTGAAGTTATTGGATACTTCTGATGCTGAAAATGTTTTGCCTA
genomic: GTTGGTCACTGCCAGTCCAGAGACTGTTGATGGCATGCTTGAGAGCCTAGgtgagttctg ... atttttgtagGCAATTTGCTGAAGTTATTGGATACTTCTGATGCTGAAAATGTTTTGCCTA