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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctctaaaagtacaagactaagtcttcttataagagtaattgatcatttgatatgtgtatttacagAACTTCCTCTTCAAATCAACCAAAGAGGACTCATCCCTCAAGGCTACAGATTTTGGTCTTTCAGATTTTATAAGACCAG

Basic information

species Oryza sativa
transcript LOC_Os07g22710.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22710.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G365035_T01 (Zea mays), 3'ss of exon 4
gtatgctctaaaagtacaagactaagtcttcttataag-agtaattgatcat---------ttgatatgtgtattta-----------------cagAACTTCCTCTTCAAATCAACCAAAGAGGACTCATCCCTCAAGGCTACAGATTTTGGTCTTTCAGATTTTATAAGACCAG
|||| |||| |||||| ||||   | || | | ||||  |||| ||| | ||         || | | | |||  ||                  |||||||||| ||||||||||  || ||||||||  |||| |||||||||||||||||||||||||| || |||| |||||
gtatactctgaaagtataagatagaatcctgtcataaatagtagttgctaatacctttttattaaaaggagtagctaataatcttattggtgtgtagAACTTCCTATTCAAATCAAAAAAGGAGGACTCGCCCCTTAAGGCTACAGATTTTGGTCTTTCAGACTTCATAAAACCAG

upper sequence: LOC_Os07g22710.3 (Oryza sativa), 3'ss of exon 3
lower sequence: AT4G36070.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------------------gtatgctctaaaagtacaagactaagtcttcttataagagtaattgatcatttgatatgt-gtatttacagAACTTCCTCTTCAAATCAACCAAAGAGGACTCATCCCTCAAGGCTACAGATTTTGGTCTTTCAGATTTTATAAGACCAG
                              | |   |  |||   | | |   |||  |  | || |   |||       | ||||   |     |  ||||| || || |||||||||||| |||| |  ||||| || |||||||||||||||||||| || || || ||||  ||||
gtaggtacgattcagtttgattcaatgcttggaaattgcaaatccatatgtgaaagcatcttcatcactttaagaagagttatgatcccttaccctctcagAATTTTCTGTTCAAATCAACCGAAGAAGGTTCATCTCTAAAGGCTACAGATTTTGGTCTGTCGGACTTCATAAAGCCAG
















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|58682948|gb|CK071635.1|CK071635
EST:     CTGCTGAGTGCCATTTGCATGGTTTGGTTCATCGGGACATGAAGCCTGAG                         AACTTCCTCTTCAAATCAACCAAAGAGGACTCATCCCTCAAGGCTACAGAT
genomic: CTGCTGAGTGCCATTTGCATGGTTTGGTTCATCGGGACATGAAGCCTGAGgtatgctcta ... gtatttacagAACTTCCTCTTCAAATCAACCAAAGAGGACTCATCCCTCAAGGCTACAGAT
EST: gi|117210596|gb|CT863578.1|CT863578
EST:     GGTGAGTGCCATTTGCATGGGTTGGTTCATCGGGGACATGAAGCCCTG-G                         AACTTTCTCTTCAAAT
genomic: GCTGAGTGCCATTTGCATGGTTTGGTTCATCGGG-ACATGAAGCC-TGAGgtatgctcta ... gtatttacagAACTTCCTCTTCAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagactaagtcttcttataagagtaattgatcatttgatatgtgtatttacagAACTTCCTCTTCAAATCAACCAAAGAGGACTCATCCCTCAAGGCTACAGATTTTGGTCTTTCAGATTTTATAAGACCAG
                ttataagagtaatt  TA-rich tract