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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtacaaacaagtctataactactgctagcgctaaatcttcagttcataatttgatgcatgatgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGATGAGCCCACACTTGTTCTTGACCTTGACTCTCACCAATTGGCTGCATTC

Basic information

species Oryza sativa
transcript LOC_Os12g42884.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g42884.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G149751_T02 (Zea mays), 3'ss of exon 4
gtaagtgtacaaacaagtctataactactgctagcgctaaatcttcagttcataatttgatgcatgatgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGATGAGCCCACACTTGTTCTTGACCTTGACTCTCACCAATTGGCTGCATTC
|||||  || ||| ||||   |  || ||     |    ||||||||||| |||||||||||| |||||||| |||||||||| ||||||||||||||||||||||| ||| ||||||||||||||||||||||||| ||||| || |||||||| ||| || ||||||||||||||
gtaagattataaagaagttattggctgctctggccctcgaatcttcagttgataatttgatgcttgatgatt-gtagGGAGGTCATTGCTGAGTTGAAGGCAGCTGGGGCTTCATGGATTCAGTTTGATGAGCCCACTCTTGTCCTCGACCTTGATTCTGACAAATTGGCTGCATTC
















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|4880963|gb|AU065262.1|AU065262
EST:     AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA                         GGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
genomic: AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAgtaagtgtac ... tgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
EST: gi|29620902|gb|CB625913.1|CB625913
EST:     AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA                         GGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
genomic: AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAgtaagtgtac ... tgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
EST: gi|25797709|gb|CA753670.1|CA753670
EST:     AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA                         GGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
genomic: AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAgtaagtgtac ... tgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
EST: gi|58668944|gb|CK057630.1|CK057630
EST:     AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA                         GGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
genomic: AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAgtaagtgtac ... tgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
EST: gi|58611543|gb|CK039255.1|CK039255
EST:     AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA                         GGAGGTTATATGCTGAGTTGAAGGCAGCTGGTGCTACA
genomic: AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAgtaagtgtac ... tgatttgtagGGAGGTTAT-TGCTGAGTTGAAGGCAGCTGGTGCTACA
EST: gi|58664132|gb|CK052818.1|CK052818
EST:     AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA                         GGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
genomic: AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAgtaagtgtac ... tgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
EST: gi|88360108|gb|CI610222.1|CI610222
EST:     AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATC-TTCCTGTCTACAA                         GGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTT
genomic: AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAgtaagtgtac ... tgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTT
EST: gi|117239956|gb|CT849487.1|CT849487
EST:     AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA                         GGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
genomic: AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAgtaagtgtac ... tgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
EST: gi|58612621|gb|CK040333.1|CK040333
EST:     AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA                         GGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATT
genomic: AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAgtaagtgtac ... tgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATT
EST: gi|88358234|gb|CI605159.1|CI605159
EST:     AGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCNTACA-                         GGAGGGTATTGCTGAGTTG
genomic: AGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTC-TACAAgtaagtgtac ... tgatttgtagGGAGGTTATTGCTGAGTTG
EST: gi|300216097|gb|HO088723.1|HO088723
EST:     AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA                         GGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA
genomic: AAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAgtaagtgtac ... tgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactactgctagcgctaaatcttcagttcataatttgatgcatgatgatttgtagGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGATGAGCCCACACTTGTTCTTGACCTTGACTCTCACCAATTGGCTGCATTC
                          ttcataattt  TA-rich tract