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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttagattttcctaacattcttcctactaatttattttcctgcaaatgcttgtttcactttcctttttcccttcctttatcaatgtttttatgttacttctgtacagGACTCACAGATTTCAGCTATTGCCAACGGTTCCATTCTTGGGGATACATTATTTTCTAGTACAAATGAGAATTTAGCAATAGTAAGTGGTTATTCAGGAT

Basic information

species Oryza sativa
transcript LOC_Os07g48200.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g48200.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G158162_T03 (Zea mays), 3'ss of exon 7
gtaagttagattttcctaacattcttcctactaatttattttcctgcaaatgcttgtttcactttcctttttcccttcctttatcaatgtttttatgttacttctgtacagGACTCACAGATTTCAGCTATTGCCAACGGTTCCATTCTTGGGGATACATTATTTTCTAGTACAAATGAGAATTTAGCAATAGTAAGTGGTTATTCAGGAT
||||| ||||||||||         ||  ||||     | ||  ||||| |||||||| |  | || | |||   ||      ||||||||| | | |||||| |  ||||||||||||||||||||||||||| || |||||| ||||  | || ||| | ||||||| | ||||||| |   ||| | |||||||||||||| | ||||
gtaagctagattttcca--------tcagactatcggttgttgttgcaagtgcttgttcctttctcatgtttttgtt------tcaatgtttgtttattacttttacacagGACTCACAGATTTCAGCTATTGCGAATGGTTCCCTTCTCAGTGAGACACTCTTTTCTACTGCAAATGAAAGCATAGGAGTAGTAAGTGGTTATCCTGGAT

upper sequence: LOC_Os07g48200.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G172621_T01 (Zea mays), 3'ss of exon 7
gtaagttagattttcc-taacattcttcctactaatttatt-ttcctgcaaatgcttgtttcactttcctttttcccttccttta--tcaatgtttttatgttacttctgtacagGACTCACAGATTTCAGCTATTGCCAACGGTTCCATTCTTGGGGATACATTATTTTCTAGTACAAATGAGAATTTAGCAATAGTAAGTGGTTATTCAGGAT
|||||||||||||||| ||| ||          ||| ||||  |  ||||| |||||||||  | |  | |||  | |   |||   || |||||| | | |||||| |   |||||||||||||| ||||||||||| || |||||| ||||  | || ||| | ||||||| | ||||||||||  |||   | |||||||||||| | ||||
gtaagttagattttccataagat----------aatctattgctgatgcaagtgcttgtttttcatctcctttctcatgtttttgcttcgatgtttgtttattacttttacgcagGACTCACAGATCTCAGCTATTGCAAATGGTTCCCTTCTCAGTGAGACACTCTTTTCTACTGCAAATGAGAACATAGGTGTCGTAAGTGGTTATCCTGGAT
















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


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcactttcctttttcccttcctttatcaatgtttttatgttacttctgtacagGACTCACAGATTTCAGCTATTGCCAACGGTTCCATTCTTGGGGATACATTATTTTCTAGTACAAATGAGAATTTAGCAATAGTAAGTGGTTATTCAGGAT
                                         ttacttct  CT-rich tract
                       tttatcaatgttttta  TA-rich tract