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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatcccttgtatcaattagagtaatcttcactcacatatgttttcataaaaaaaggtcacatatcttttataagctatctgaaattcttaaatttaccttgccgtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCCCCAGAACTCATATTTGGGGCTACAGAGTACACGACAGCTATTGATGTGT

Basic information

species Oryza sativa
transcript LOC_Os01g19150.5
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g19150.4 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G075992_T01 (Zea mays), 3'ss of exon 3
gtatgatcccttgtatcaattagagtaatcttcactcacatatgttttcataaaaaaaggtcacatatcttttataagctatctgaaattcttaaatttaccttgccgtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCCCCAGAACTCATATTTGGGGCTACAGAGTACACGACAGCTATTGATGTGT
|||||  |   |||| |   ||||      || ||| |    || | ||     |||   ||||||   || | || || |||  ||||| | |||||   ||  |  |||  ||||||  ||||||||||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||||||| ||||| || ||||||||||| ||||
gtatgtgc---tgtaacttctaga------tttactgaatactgatgtcgcctgaaaca-tcacatgatttgtgtatgccatccaaaattgtgaaatt---ctacctatgttaatagGTACAAGGGGAACCAAATATTTCATATATTTGTTCTAGATACTACAGAGCCCCAGAGCTCATATTTGGGGCTACTGAGTATACAACAGCTATTGACGTGT

upper sequence: LOC_Os01g19150.4 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA02G01220.1 (Glycine max), 3'ss of exon 7
gtatgatcccttgtatcaattagagtaatcttcactcacatatgttttcataaaaaaaggtcacatatcttttataagctatctgaaattcttaaatttaccttgccgtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCCCCAGAACTCATATTTGGGGCTACAGAGTACACGACAGCTATTGATGTGT
||||| |   |    ||||   |    || || | |   || |||||| |    |     |  |  |  | | ||  | || |   |||    ||||||      |    |  | |||| ||||| |||||||| || || |||||||||||||| ||||| ||||| || || || |||||||| || || |||||||| || || |||||| | |
gtatgtttattc---tcaacctggc--atttttatt---atctgttttta----actttctatctgaattctgatgtgttaccatgaat----aaattt--tgcacttatttgacagGTCAAAGGCGAACCAAACATATCTTATATCTGTTCTAGGTACTATAGAGCACCTGAGCTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATCT

upper sequence: LOC_Os01g19150.4 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA10G01280.1 (Glycine max), 3'ss of exon 7
gtatgatcccttgtatcaattagagtaatcttcactcacatatgttttcataaaaaaaggtcacatatcttttataagctatctgaaattcttaaatttaccttgc-cgtgtcc-atagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCCCCAGAACTCATATTTGGGGCTACAGAGTACACGACAGCTATTGATGTGT
||||| ||  |    ||||   |   ||| |    |    | ||||||            |||| |    | |  |  ||   ||  || | | |||  |  |||| | | |   | |||| |||||||||||||| || || || ||||| ||||| ||||| ||||| || ||||| |||||||| || || |||||||| || || |||||| | |
gtatgttcattc---tcaacctgg--aatttctgtt---gtctgtttt------------tcactttctatctgaattctgattgttat-catgaataaattttgcacttatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCACCTGAACTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATTT

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|29628248|gb|CB633259.1|CB633259
EST:     CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTG                         GTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
genomic: CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTGgtatgatccc ... gtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
EST: gi|33683226|gb|CF311465.1|CF311465
EST:     CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTG                         GTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
genomic: CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTGgtatgatccc ... gtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
EST: gi|29668828|gb|CB665103.1|CB665103
EST:     CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTG                         GTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
genomic: CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTGgtatgatccc ... gtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
EST: gi|29628183|gb|CB633194.1|CB633194
EST:     CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTG                         GTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
genomic: CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTGgtatgatccc ... gtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
EST: gi|29637277|gb|CB642286.1|CB642286
EST:     CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTG                         GTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
genomic: CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTGgtatgatccc ... gtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
EST: gi|29666642|gb|CB662917.1|CB662917
EST:     CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTG                         GTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
genomic: CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTGgtatgatccc ... gtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
EST: gi|218502361|gb|FG956952.1|FG956952
EST:     CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTG                         GTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
genomic: CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTGgtatgatccc ... gtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
EST: gi|29668963|gb|CB665238.1|CB665238
EST:     CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTG                         GTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC
genomic: CACATAATCATCAGTTGAAATTGTGTGACTTTGGCAGTGCAAAAGTCCTGgtatgatccc ... gtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatatcttttataagctatctgaaattcttaaatttaccttgccgtgtccatagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCCCCAGAACTCATATTTGGGGCTACAGAGTACACGACAGCTATTGATGTGT
                 tatctgaaattcttaa  TA-rich tract