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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaccgccgcctcctcctcccgattcttatctcgtttttctcggctcactgtctggctctcacgcttttctacttgcgtcttgctctttgctgctgcgatgcgaacgaactgaagATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACATCCCCGCCGTGCTCGCCCGTGCGCGGGCGGCCGGCGTCGACCGCATCAT

Basic information

species Oryza sativa
transcript LOC_Os07g06410.5
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g06410.5 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G095969_T01 (Zea mays), 3'ss of exon 1
--------------------------------gtataaccgccgcctcctcctcccgattcttatctcgtttttctcggctcactgtctggctctcacgcttttctacttgcgtcttgctctttgctg-ctgc--gatgcgaacgaactgaagATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACATCCCCGCCGTGCTCGCCCGTGCGCGGGCGGCCGGCGTCGACCGCATCAT
                                 ||   |   ||   |      | | ||     ||  || | |    ||| || |||  ||||| | |||  |   | ||||    | |  | | | |||   | ||| |  |   ||||||||||||||||| ||||||||||||||||||||| |||||||||||||||||||| ||||| ||||| || ||| |||| || |||||||| ||||||||
gtaactcaaataccctccgtttcgctcttttcttagtgcttacgtacctcgtaactggttgcctgcttcttgtgcctctctctctctctctctctccctcttcccgcgtggcgtgcgccgccgtacgggctgtttgctgctactgccttgaagATGGCATGTTCAAGGGCATCTACCACGGCAAGCAGTGCCACGCCGCCGACATCCCGGCCGTACTCGCGCGCGCGTGGGCTGCAGGCGTCGATCGCATCAT

upper sequence: LOC_Os07g06410.5 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA19G38780.1 (Glycine max), 3'ss of exon 2
gtataaccgccgcctcctcctcccgattcttatctcgtttttctcggctcactgtctggctctcacgcttttctacttgcgtcttgctctttgctgctgcgatgcgaacgaactgaagATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACATCCCCGCCGTGCTCGCCCGTGCGCGGGCGGCCGGCGTCGACCGCATCAT
                                    |      |      |     | | | || |  |  ||||      |||  |||| |    ||   || ||||  |  |  |||||||||||| | ||| |||||||||||||||||||| |||| | | || ||  |  | ||  |   | | ||  |||| |||||||||  ||| || ||
----------------------------------gtgagccatttaatcaaacactttgttttc-cattcatctat-----tctctctctctctctctctcattcgaaaaatttacagATGGCATGTTTAAGGGAATCTACCACGGCAAGCAATGTCACGTCTCGGATATTGCAACTGTTTTGAACAGAGCTTGGGCTGCCGGCGTCACCCGAATTAT
















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|117217069|gb|CT845334.1|CT845334
EST:     TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCG                         ATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
genomic: TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCGgtataaccgc ... cgaactgaagATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
EST: gi|88905627|gb|CI712926.1|CI712926
EST:     TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCG                         ATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
genomic: TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCGgtataaccgc ... cgaactgaagATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
EST: gi|88959597|gb|CI716964.1|CI716964
EST:     TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCG                         ATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
genomic: TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCGgtataaccgc ... cgaactgaagATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
EST: gi|88667942|gb|CI722681.1|CI722681
EST:     TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCG                         ATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
genomic: TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCGgtataaccgc ... cgaactgaagATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
EST: gi|88670767|gb|CI724883.1|CI724883
EST:     TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCG                         ATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
genomic: TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCGgtataaccgc ... cgaactgaagATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
EST: gi|88671796|gb|CI725331.1|CI725331
EST:     TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCG                         ATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA
genomic: TCCGTCTCCGGCGCCACCGCGACGAGCAGACATCGCCGTCAACTTCACCGgtataaccgc ... cgaactgaagATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacgcttttctacttgcgtcttgctctttgctgctgcgatgcgaacgaactgaagATGGCATGTTCAGGGGCATCTACCACGGCAAGCAATGCCACGCCGCCGACATCCCCGCCGTGCTCGCCCGTGCGCGGGCGGCCGGCGTCGACCGCATCAT
 ctctcac  putative branch site (score: 3)
     ttttcta  TA-rich tract