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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgcttgcagCCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTTTCAAGATTCCTATGAGATAATTGCATTGTTCAGAAAAGCTTATGAATCA

Basic information

species Oryza sativa
transcript LOC_Os02g48380.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g48380.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM5G856899_T01 (Zea mays), 3'ss of exon 5
gtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgc----------ttgcagCCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTTTCAAGATTCCTATGAGATAATTGCATTGTTCAGAAAAGCTTATGAATCA
||||| || ||||  ||| |||      | ||  ||||  | ||||||||||  ||   ||||       | |||          ||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||
gtaagctccttgatactt-gttttcaaaaaattataacaca-tttttatatggatatgaatatgaatagttatgcctcaatctcattgcagCCTTTCTGATACTGAATACACCAGCTATGCTTTGTCAGAAGCTGAAAGGTTTCAAGATTCTTATGAGATAATAGCATTGTTCAGAAAAGCTTATGAATCA

upper sequence: LOC_Os02g48380.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G065044_T02 (Zea mays), 3'ss of exon 6
gtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatc-----tgacac-----tgtgcttgcagCCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTTTCAAGATTCCTATGAGATAATTGCATTGTTCAGAAAAGCTTATGAATCA
||||| |  ||||  |||  || |    |  |  |||| || | ||||||||| ||   ||||      | | ||     | || ||||||||||||||||||||| || ||||||||||||||||||||||||||||| ||||||||||| ||||||||||| ||| |||||||||||||||||||||||
gtaagcttcttgatacttgttttcaaaaaagttataacatattctttatatgaatatgaatataaatagttatacctcaatctggttgcagCCTTTCTGATACTGAATACACCAGCTATGCTTTGTCAGAAGCTGAAAGATTTCAAGATTCTTATGAGATAATAGCACTGTTCAGAAAAGCTTATGAATCA

upper sequence: LOC_Os02g48380.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G124396_T01 (Zea mays), 3'ss of exon 6
gtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgc----------ttgcagCCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTTTCAAGATTCCTATGAGATAATTGCATTGTTCAGAAAAGCTTATGAATCA
||||| || ||||  |||  || |    | ||  ||||  | ||||||||||  ||   ||||       | |||          ||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||
gtaagctccttgatacttgttttcaaaaaaattataacaca-tttttatatggatatgaatatgaatagttatgcctcaatctcattgcagCCTTTCTGATACTGAATACACCAGCTATGCTTTGTCAGAAGCTGAAAGGTTTCAAGATTCTTATGAGATAATAGCATTGTTCAGAAAAGCTTATGAATCA

upper sequence: LOC_Os02g48380.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G480620_T01 (Zea mays), 3'ss of exon 7
gtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgc----------ttgcagCCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTTTCAAGATTCCTATGAGATAATTGCATTGTTCAGAAAAGCTTATGAATCA------------------------
||||| || ||||  ||| |||      | ||  ||||  | ||||||||||  ||   ||||       | |||          ||||| ||||||||||||||| || ||||||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||                        
gtaagctccttgatactt-gttttcaaaaaattataacacattttttatatggatatgaatatgaatagttatgcctcaatctcattgcaacctttctgatactgaatacaccagCTATGCTTTGTCAGAAGCTGAAAGGTTTCAAGATTCTTATGAGATAATAGCATTGTTCAGAAAAGCTTATGAATCATTTCAGAGCCTAGGTGCTACAAGA

upper sequence: LOC_Os02g48380.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G104714_T01 (Zea mays), 3'ss of exon 3
gtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgc----------ttgcagCCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTTTCAAGATTCCTATGAGATAATTGCATTGTTCAGAAAAGCTTATGAATCA
||||| || ||||  ||| |||      | ||  ||||  | ||||||||||  ||   ||||       | |||          ||||||||||||||||||||| || ||||||||||||||||| ||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||
gtaagctccttgatactt-gttttcaaaaaattataacaca-tttttatatggatatgaatatgaatagttatgcctcaatctcattgcagCCTTTCTGATACTGAATACACCAGCTATGCTTTGTCTGAAGCTGAAAGGTTTCAAGATTCTTATGAGATAATAGCATTGTTCAGAAAAGCTTATGAATCA

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|88226302|gb|CI226218.1|CI226218
EST:     GGTCAGTATGTACGCTTGTTTGAGCAAGGAGATACAGTTGCGGTGCTTCC                         CCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTT
genomic: GGTCAGTATGTACGCTTGTTTGAGCAAGGAGATACAGTTGCGGTGCTTCCgtaagttctt ... gtgcttgcagCCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagatgttaacgtaatttttatatgactacttatatctgacactgtgcttgcagCCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTTTCAAGATTCCTATGAGATAATTGCATTGTTCAGAAAAGCTTATGAATCA
             taatttttatatgact  TA-rich tract