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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcttttattgctaactggagcagtttgtgtagtttctttctttctctttgagaattctctcagtttcttgggcagGCTCTTGAGCTACCAAGTATGTCAGCTTCAAATGAGAAGTGGATTGATGGGCTCCAGTTCTCATCACTGTTCTGGCCCCCACCACAGGATTCACAACAAA

Basic information

species Oryza sativa
transcript LOC_Os01g08700.8
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g08700.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 2
gtgcttttattgctaactggagcagtttgtgtagtttctttctttctctttgagaattctctcagtttcttgggcagGCTCTTGAGCTACCAAGTATGTCAGCTTCAAATGAGAAGTGGATTGATGGGCTCCAGTTCTCATCACTGTTCTGGCCCCCACCACAGGATTCACAACAAA
||||| |||||| | | |||| |  | |||||| ||| |||||||| ||||||||    |   ||||||||||||||||||||||||||||||| ||||||| |||||||| ||||||||||||||||||||||||| ||||| ||| |||||| ||||| |  ||| |  | || |
gtgctcttattggttattggatcgctgtgtgtaatttgtttctttccctttgagagcctttctagtttcttgggcagGCTCTTGAGCTACCAAGCATGTCAGATTCAAATGTGAAGTGGATTGATGGGCTCCAGTTCACATCATTGTACTGGCCTCCACCCCTCGATGCGGAGCAGA

upper sequence: LOC_Os01g08700.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM5G844173_T01 (Zea mays), 3'ss of exon 1
-------------------------gtgcttttattgctaactggagcagtttgtgtagtttctttctttctctttgagaattctctcagtttcttgggcagGCTCTTGAGCTACCAAGTATGTCAGCTTCAAATGAGAAGTGGATTGATGGGCTCCAGTTCTCATCACTGTTCTGGCCCCCACCACAGGATTCACAACAAA
                         ||||| |||||| | |  ||| ||   |||| | ||| ||||||||  |||||||    |   ||||||||||||||||||||||||||||||| |||||||  ||||||| |||||||||||||||||| || ||| ||||| ||| |||||| ||||| ||||||    | || |
aacttgaacacagtgttgattacaggtgctcttattggttatgggatcaa--tgtgcaatttttttctttccgtttgagagcctttctagtttcttgggcagGCTCTTGAGCTACCAAGCATGTCAGAATCAAATGTGAAGTGGATTGATGGGCTTCACTTCACATCATTGTACTGGCCTCCACCCCAGGATGTGGAGCAGA

upper sequence: LOC_Os01g08700.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G107101_T06 (Zea mays), 3'ss of exon 1
gtgcttttattgctaactggagcagtttgtgtagtttctttctttctctttgagaattctctcagtttcttgggcagGCTCTTGAGCTACCAAGTATGTCAGCTTCAAATGAGAAGTGGATTGATGGGCTCCAGTTCTCATCACTGTTCTGGCCCCCACCACAGGATTCACAACAAA
||||| |||||| | | |||| |  | |||||| ||| |||||||| ||||||||    |   ||||||||||||||||||||||||||||||| ||||||| |||||||| ||||||||||||||||||||||||| ||||| ||| ||||||                       
gtgctcttattggttattggatcgctgtgtgtaatttgtttctttccctttgagAGCCTTTCTAGTTTCTTGGGCAGGCTCTTGAGCTACCAAGCATGTCAGATTCAAATGTGAAGTGGATTGATGGGCTCCAGTTCACATCATTGTACTGGCC-----------------------

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|29642016|gb|CB647023.1|CB647023
EST:     GATGAACTAACTGGCGGCTTCAACGTGGTGTTGATTACAG                         GCTCTTGAGCTACCAAGTATGTCAGCTTCAAATGAGAAGTGGATTGATGGG
genomic: GATGAACTAACTGGCGGCTTCAACGTGGTGTTGATTACAGgtgcttttat ... tcttgggcagGCTCTTGAGCTACCAAGTATGTCAGCTTCAAATGAGAAGTGGATTGATGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtttgtgtagtttctttctttctctttgagaattctctcagtttcttgggcagGCTCTTGAGCTACCAAGTATGTCAGCTTCAAATGAGAAGTGGATTGATGGGCTCCAGTTCTCATCACTGTTCTGGCCCCCACCACAGGATTCACAACAAA
                                  ttctctcagtttctt  CT-rich tract
            tttcttt  TA-rich tract