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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatccttgtgtcattttgcacattcgaaagggttatcttgtcaaatgctgaccaatgtcctattaatttttgcagTGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCGTAGCTTCAATGCCCCATCGATAGATGAAAAGTTTGAACTGCTTGGAAT

Basic information

species Oryza sativa
transcript LOC_Os12g13590.2
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g13590.2 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM5G823484_T01 (Zea mays), 3'ss of exon 7
----------------------------gtatccttgtgtcattttgcacattcgaaagggttatcttgtcaaatgctgaccaatgtcctattaatttttgcagTGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCGTAGCTTCAATGCCCCATCGATAGATGAAAAGTTTGAACTGCTTGGAAT
||| || |||| | | || | | | | ||| | || || | | | ||||| ||| |||||||| ||||| |||||||||| || ||||| || ||||| ||||||||||||||||||||||| || |||||||| ||||| |||||| | |||||
aatcgaaatatttgccaatgttttgatccactccatgaaccattatttatcttggcagagccttgcttcatacatagtgccttactttttatta----ttgtagTGGTGGCCTACGGTTGAAACGTGACATAACTGAATATGGGGATTTCGTTCGTAGCTTCAATGCCCCCTCCATAGATGAGAAGTTCGAACTGTTGGGAAT
















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|33689209|gb|CF317448.1|CF317448
EST:     TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAG                         TGGTAGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
genomic: TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAGgtatccttgt ... atttttgcagTGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
EST: gi|87029720|gb|CI274401.1|CI274401
EST:     TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAG                         TGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
genomic: TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAGgtatccttgt ... atttttgcagTGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
EST: gi|66920327|gb|CX107175.1|CX107175
EST:     TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAG                         TGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
genomic: TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAGgtatccttgt ... atttttgcagTGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
EST: gi|88974506|gb|CI022047.1|CI022047
EST:     TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAG                         TGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
genomic: TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAGgtatccttgt ... atttttgcagTGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
EST: gi|58666677|gb|CK055363.1|CK055363
EST:     GGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAG                         TGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
genomic: GGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAGgtatccttgt ... atttttgcagTGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
EST: gi|33689213|gb|CF317452.1|CF317452
EST:     TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAG                         TGGTAGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
genomic: TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAGgtatccttgt ... atttttgcagTGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
EST: gi|87029773|gb|CI274454.1|CI274454
EST:     TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAG                         TGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG
genomic: TTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTTAGTCCCAGgtatccttgt ... atttttgcagTGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcgaaagggttatcttgtcaaatgctgaccaatgtcctattaatttttgcagTGGTGGGTTACGGCTGAAACGTGATATCACTGAGTACGGGGAATTCGTTCGTAGCTTCAATGCCCCATCGATAGATGAAAAGTTTGAACTGCTTGGAAT
                                        tattaat  putative branch site (score: 2)
 tttttgc  CT-rich tract
 tcctattaattttt  TA-rich tract