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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgtacatgcttgctatgttggaacttatcacgttcgctgttattgtgtggcggttgataaccattgagcttaccacaaaaactgttggaattgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATCGTGACATCAGAAATCGAGTTTGGTCTGAATGATGATTTCCGCGTCATCC

Basic information

species Oryza sativa
transcript LOC_Os02g17320.2
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g17320.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G034143_T03 (Zea mays), 3'ss of exon 15
-ctgta-catgcttgctatgttggaacttatcacgttcgc---tgttattgtgtggcggttgataaccattgagcttaccacaaaaactgttggaattgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATCGTGACATCAGAAATCGAGTTTGGTCTGAATGATGATTTCCGCGTCATCC
 | | | ||   |||  |     | |  | | | ||  |    || |   |||| |||  |  |  |     |   || | ||  |  |        | || ||||| |||||||||||||||||||| ||||||||||| || |||||||||||||| || || || || ||||||||||| |||||||||||||| ||  | |
acagaagcaattttgtaacaactgtatctgtgaagtgtgtacatgatggcgtgtagcgcgtagtggcttggaaatctaactcatcagttt-----gctcttacagGCGCCCCAAGGAGTGCATGTGGTGAGCAAGAGATTCCCTAGAGTGAAGATCGTTACTTCGGAGATTGAGTTTGGTCTAAATGATGATTTCCGTGTTGTGC

upper sequence: LOC_Os02g17320.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G169462_T01 (Zea mays), 3'ss of exon 13
ctgtacatgcttgctatgttggaacttatc-acgttcgctgttattgtgtggcggt-tgataac-cattgagcttaccacaaaaact----gttggaattgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATCGTGACATCAGAAATCGAGTTTGGTCTGAATGATGATTTCCGCGTCATCC
      ||| |   | |  |   ||| ||  |   ||  |||| |    ||  ||  || ||   ||| | | ||   |    ||||    | ||| | | || ||||| ||||||||||||||||||||  |||||||||| || ||| |||||||||| || || || || ||||  ||||| |||||||||||||| ||| | |
------atgatgtgtgtaatcagactcatttatcatcattgttgt-acatgatggcatgttagtgcatagtggttggaaatctaactcgtcggtggtactcttacagGCGCCCCAAGGAGTGCATGTGGTGTGCAAGAGATTCCCTAGAATGAAGATCGTTACTTCGGAGATTGAGTCCGGTCTAAATGATGATTTCCGTGTCGTAC

upper sequence: LOC_Os02g17320.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GLYMA18G08180.1 (Glycine max), 3'ss of exon 14
-----------------------------ctgtacatgcttgctatgttggaacttatcacgttcgctgttattgtgtggcggttg--ataaccattgagcttaccacaaaaactgttggaattgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATCGTGACATCAGAAATCGAGTTTGGTCTGAATGATGATTTCCGCGTCATCC-
                              |       |||  |   ||| ||  |      ||| || ||  |   |     ||   ||     ||  | ||  ||    |  | || | |   || ||||| ||  |||| |||||||||||  |||| || ||||||||| | ||||| || ||||| || || ||| ||||| ||||||| |||||||| ||||| | 
taagtgactattgtcttggttcctctatatttcttgctctttttcctttgcaatgtgattaattctctcttgcttctttctttttattatgttgtttatgattttcatttga--tttttgcaccttttcaggCACCTAAAGGTGTGCATGTGGTATGCAAAAGTTTTCCAAGAATAAAGATAGTAACATCTGAGATTGAGATTGGTTTGAATGAAGATTTCCGTGTCATACC

upper sequence: LOC_Os02g17320.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GLYMA08G45270.1 (Glycine max), 3'ss of exon 14
-------------------------ctgtacatgcttgctatgttggaacttatcacg-----ttcgctgttattgtgtggcggttgata-accattgagcttaccacaaa--aactgttggaattgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATCGTGACATCAGAAATCGAGTTTGGTCTGAATGATGATTTCCGCGTCATCC
                         |||||  | |||||||  ||     |||    |     ||| || ||  |   |     ||  |    | || |  |       |    |  | ||    | || ||||| ||  |||| |||||||||||  |||| || ||||||||| | ||||| |||||||| || || ||| ||||| ||||||| |||||||| ||||| |
gtaagtgactaatgtcttagttcctctgtatct-cttgctaattttctttttactgtgattaattctctcttgcttctttctttttattgtgtcgtttaaatggttttcatttgatcgctgctcct-tttcagGCACCTAAAGGTGTGCATGTGGTATGCAAAAGTTTTCCAAGAATAAAGATAGTGACATCGGAGATTGAGATTGGTTTGAATGAAGATTTCCGTGTCATAC

upper sequence: LOC_Os02g17320.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GLYMA14G01480.1 (Glycine max), 3'ss of exon 11
---------------------------ctgtacatgcttgctatgttggaacttatca--cgttcgctgtta-ttgtgtggcggttgataaccattgagcttaccacaaaaac-tgttggaattgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATCGTGACATCAGAAATCGAGTTTGGTCTGAATGATGATTTCCGCGTCATCC
                           || |  ||      ||| |||  | || |      ||  |||||  || | |      |  || | | |||  |    | | | |  || |   ||  | |||||| || ||||| || ||||||||| | || |||||||||||| | || ||| ||||||| || || ||| ||||| ||||||| |||||||| ||||| |
gtaagttacttgtgcctgttgttgttcctctgtatatcatatatcttgccatttctttgttattttctgttgcttctttcttttcttgtacctaatgatttgcatatatatatatgctctcatattgccagGCACCTCAAGGTGTTCATGTGGTCTGTAAAAGATTTCCAAGAATAAAAATCCTGACATCTGAGATTGAGATTGGTTTGAATGAAGATTTCCGTGTCATAC

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|88273348|gb|CI388804.1|CI388804
EST:     CTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: CTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|29633369|gb|CB638378.1|CB638378
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|86886699|gb|CI334613.1|CI334613
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|87037876|gb|CI192498.1|CI192498
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|3760815|gb|C98069.1|C98069
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|33683400|gb|CF311639.1|CF311639
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTA-TTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|87029276|gb|CI276544.1|CI276544
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|88233330|gb|CI233179.1|CI233179
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|86843464|gb|CI339536.1|CI339536
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|86498530|gb|CI141163.1|CI141163
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|86505781|gb|CI148414.1|CI148414
EST:     ATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: ATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|29675373|gb|CB671648.1|CB671648
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|29627016|gb|CB632027.1|CB632027
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|86537180|gb|CI177386.1|CI177386
EST:     TGAAAAAGGGTGTACAGGAAACAAATATCATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|29669519|gb|CB665794.1|CB665794
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|29643326|gb|CB648333.1|CB648333
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|86536638|gb|CI176844.1|CI176844
EST:     TGAAAAAGGGTGTACAGGAAACAAATATCATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
EST: gi|86486730|gb|CI129363.1|CI129363
EST:     TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCA                         GCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC
genomic: TGAAAAAGGGTGTACAGGAAACAAATATTATTTTTCTGAATCTTATATCAgtaagtctac ... attgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtggcggttgataaccattgagcttaccacaaaaactgttggaattgttccagGCTCCCCAAGGAGTGCATGTGGTCAGCAAGAGATTTCCAAGAGTGAAGATCGTGACATCAGAAATCGAGTTTGGTCTGAATGATGATTTCCGCGTCATCC
                                              ttgttcc  CT-rich tract
         ttgataa  TA-rich tract