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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcgaaacatttttttttcttctacttttaaactcttatctttcttcttaaagtttttagttgttgtgtgtcaattctcatggaatagatgggccgtgttttcagGCAAAACAAGGTATTGGTGAATCAGCTAAGTCAACCAGAGCCAGGAACATCAGATCTGCATTTTCCTACAAAATACTCTCAATCCACCATAGGGCAATTT

Basic information

species Oryza sativa
transcript LOC_Os06g36090.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g36090.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G366146_T01 (Zea mays), 3'ss of exon 14
---------------------gtaagcgaaacatttttttttcttctacttttaaactcttatctttcttcttaaagtttttagttgttgtgtgtcaattctcatggaatagatgggccgtgttttcagGCAAAACAAGGTATTGGTGAATCAGCTAAGTCAACCAGAGCCAGGAACATCAGATCTGCATTTTCCTACAAAATACTCTCAATCCACCATAGGGCAATTT
                      |     ||| ||||| ||| ||  | | |       | |   ||  ||  ||   |||| ||||     || || | |  | ||||||  |       ||| | |||||||||||||||| ||||||| ||||| ||||||||||| |||||||||||||||||  |||| |||||| | ||||| ||||||||  |||| || || 
gtaagtgatagatatgcttttttgtagaaaatattttgtttcctatttcctcagctagcctgctttatttaatatgcttttgagtt---tagtatctaattccttggaattcaatactattgtatgcagGCAAAACAAGGTACTGGTGAACCAGCTGAGTCAACCAGAACCAGGAACATCAGATCTTTATTTCCCTACAGAGTACTCACAATCCACAGTAGGACAGTTC

upper sequence: LOC_Os06g36090.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 18
-------------------gtaagcgaaacatttttttttcttctacttttaaactcttatctttcttcttaaa-gtttttagttgttgtgtgtcaattctcatggaatagatgggccgtgttttcagGCAAAACAAGGTATTGGTGAATCAGCTAAGTCAACCAGAGCCAGGAACATCAGATCTGCATTTTCCTACAAAATACTCTCAATCCACCATAGGGCAATTT
                    |  |   || || ||| |||| | |  |   |        | |||  |  || | ||||||   | | ||   | ||||| |  ||| |  |  |    ||||| |||||||||||||||| ||||||| ||||| |||||||||||||||||||||||||||||  |||| |||||| | ||||| |||||||| ||||| || || 
gtaagtgatatatatgcttctttgtagaaaatatttgtttcctgttttcgcagctagccctgttttatactatatgtttttgagtttagta-attaattc-ctcggagtgcaatgatattgtttccagGCAAAACAAGGTACTGGTGAACCAGCTGAGTCAACCAGAGCCAGGAACATCAGATCTTTATTTCCCTACAGAGTACTCGCAATCCACAATAGGACAGTTC
















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|86849252|gb|CI297739.1|CI297739
EST:     CGCTTAAATATGGACTTTGCTGAGTACTATAAGACATCAGACCTGTACAA                         GCAAAACAAGGTATTGGTGAATCAGCTAAGTCAACCAGAGCCAGGAACATC
genomic: CGCTTAAATATGGACTTTGCTGAGTACTATAAGACATCAGACCTGTACAAgtaagcgaaa ... gtgttttcagGCAAAACAAGGTATTGGTGAATCAGCTAAGTCAACCAGAGCCAGGAACATC
EST: gi|25797192|gb|CA753153.1|CA753153
EST:     CGCTTAAATATGGACTTTGCTGAGTACTATAAGACATCAGACCTGTACAA                         GCAAAACAAGGTATTGGTGAATCAGCTAAGTCAACCAGAGCCAGGAACATC
genomic: CGCTTAAATATGGACTTTGCTGAGTACTATAAGACATCAGACCTGTACAAgtaagcgaaa ... gtgttttcagGCAAAACAAGGTATTGGTGAATCAGCTAAGTCAACCAGAGCCAGGAACATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtttttagttgttgtgtgtcaattctcatggaatagatgggccgtgttttcagGCAAAACAAGGTATTGGTGAATCAGCTAAGTCAACCAGAGCCAGGAACATCAGATCTGCATTTTCCTACAAAATACTCTCAATCCACCATAGGGCAATTT
                                              tgttttc  CT-rich tract
     tttagtt  TA-rich tract