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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGACTTTTAGTCGGATAGAACCTGGAGGGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCAgtaagttagattttcctaacattcttcctactaatttattttcctgcaaatgcttgtttcactttcctttttcccttcctttatcaatgtttttatgttacttctgtacag

Basic information

species Oryza sativa
transcript LOC_Os07g48200.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g48200.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G172621_T01 (Zea mays), 5'ss of exon 7
TGACTTTTAGTCGGATAGAACCTGGAGGGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCAgtaagttagattttcc-taacattcttcctactaatttatt-ttcctgcaaatgcttgtttcactttcctttttcccttccttta--tcaatgtttttatgttacttctgtacag
|||| |||||||| ||||| |||||||||||||||||||||||||| |||||||||||||| ||||||||| ||||||||||||||||||||| ||| ||          ||| ||||  |  ||||| |||||||||  | |  | |||  | |   |||   || |||||| | | |||||| |   |||
TGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGAAGGCCACAAATACTGTCAGTCTGCCAgtaagttagattttccataagat----------aatctattgctgatgcaagtgcttgtttttcatctcctttctcatgtttttgcttcgatgtttgtttattacttttacgcag

upper sequence: LOC_Os07g48200.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G158162_T03 (Zea mays), 5'ss of exon 7
TGACTTTTAGTCGGATAGAACCTGGAGGGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCAgtaagttagattttcctaacattcttcctactaatttattttcctgcaaatgcttgtttcactttcctttttcccttcctttatcaatgtttttatgttacttctgtacag
|||| |||||||| ||||| |||||||||||||||||||||||||| |||||||||||||| ||||||||| |||||||||| ||||||||||         ||  ||||     | ||  ||||| |||||||| |  | || | |||   ||      ||||||||| | | |||||| |  ||||
TGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGAAGGCCACAAATACTGTCAGTCTGCCAgtaagctagattttcca--------tcagactatcggttgttgttgcaagtgcttgttcctttctcatgtttttgtt------tcaatgtttgtttattacttttacacag

upper sequence: LOC_Os07g48200.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA18G05840.1 (Glycine max), 5'ss of exon 9
TGACTTTTAGTCGGATAGAACCTGGAGGGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCAgtaagttagattttcctaacattcttcctactaatttattttcctgcaaatgcttgtttcactttcctttttcccttcctttatcaatgtttttat-gttacttctgtacag------------------------------
| || |||||||||||||| || ||||| |||||||||||||| ||| | |||||  | ||  ||  ||| |   |||   || | |   |    |  ||  |     |   || |  |      ||| | | ||| | | |  || ||   |    |||| | | || ||||  ||| ||||||                                  
TAACATTTAGTCGGATAGATCCCGGAGGCAAACTTGTTATGGGTTTCAGAAAGGCATCTAATTCTA-CAGATACACAGgttgtgacacaatttccattttactatgtgtggcttctcctttgaataatacatcttttattattattattat-tattattattattattattattattatttctgttggtgaatatgataaacggctattgtttaaacag

upper sequence: LOC_Os07g48200.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA11G31270.1 (Glycine max), 5'ss of exon 3
TGACTTTTAGTCGGATAGAACCTGGAGGGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCAgtaa-gttagattttcctaacattcttcctactaatttattttcctgcaaatgcttgtttcactttcctttttcccttcctttatcaatgtttttat--gttact-tctgtacag
| || |||||||||||||| |||||||| ||||| |||||||| ||| | || ||  ||||  ||     |   |  ||   | || | |||||  |  ||        |    | || |      ||| | |  || | | |  || ||   |   ||  | ||| |  | |   | || | | |  ||||
TAACATTTAGTCGGATAGATCCTGGAGGCAAACTAGTTATGGGTTTCAGAAAAGCATCAAATTCTACAGATACACAGgttgtgatacaatttcc--attttaccatgtgtggcctcttctttgaataatacat-ctttattattattattatttctgttggtgaatatgataaatggctattgtttaaacag

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|58686025|gb|CK074712.1|CK074712
EST:     GGAA-CTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCA                         GACTCACAGATTTCAGCTATTGCCAACGGTTCCATTCTTGGGGATACATTA
genomic: GGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCAgtaagttaga ... ttctgtacagGACTCACAGATTTCAGCTATTGCCAACGGTTCCATTCTTGGGGATACATTA
EST: gi|58682644|gb|CK071331.1|CK071331
EST:     GGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCA                         GACTCACAGATTTCAGCTATTGCCAACGGTTCCATTCTTGGGGATACATTA
genomic: GGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCAgtaagttaga ... ttctgtacagGACTCACAGATTTCAGCTATTGCCAACGGTTCCATTCTTGGGGATACATTA
EST: gi|58672846|gb|CK061532.1|CK061532
EST:     GGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCA                         GACTCACAGATTTCAGCTATTGCCAACGGTTCCATTCTTGGGGATACATTA
genomic: GGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCAgtaagttaga ... ttctgtacagGACTCACAGATTTCAGCTATTGCCAACGGTTCCATTCTTGGGGATACATTA