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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgtttttcttgtctactacaaactctagccaaccatgaatggttttttgagaatggacattaattattgttcactacattaactcattttattttgtttactcttatccgttaatctttcagGCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTATATGGGTGCAAACATTGCGGATCTATTTCAGAGAATGGCTGTCATGTCAG

Basic information

species Oryza sativa
transcript LOC_Os12g19304.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g19304.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G142836_T01 (Zea mays), 3'ss of exon 2
gtaggtgtttttcttgtctactacaaactctagccaaccatgaatggttttttgagaatggacattaattattgttcactacattaactcattttattttgtttactcttatccgttaatctttcagGCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTATATGGGTGCAAACATTGCGGATCTATTTCAGAGAATGGCTGTCATGTCAG
                                      | ||  | | || | ||||||   |     ||  | |  | |  | | | || | | ||   | || ||    |   |  ||  || |||||||| |||||||||||  | |||||||||||||||| || ||||| ||||||||||||||||| || ||| |||||||||||||||||   |||||||
-----------------------------------gtacctgttttgcttct-gagaattatctgagtttcatttgtattttacttattc-tgtaatcaagctttcttaactttctatatgctttagGCATTTTCCCAAATACCAAATGTTAATGTCTGGTATGGTCCTGATTCATATATGGGTGCAAACATAGCAGATTTATTTCAGAGAATGGCTACAATGTCAG
















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|33796673|gb|CF324204.1|CF324204
EST:     TACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAG                         GCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTAT
genomic: TACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAGgtaggtgttt ... aatctttcagGCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTAT
EST: gi|58688229|gb|CK076916.1|CK076916
EST:     TACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAG                         GCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTAT
genomic: TACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAGgtaggtgttt ... aatctttcagGCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttcactacattaactcattttattttgtttactcttatccgttaatctttcagGCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTATATGGGTGCAAACATTGCGGATCTATTTCAGAGAATGGCTGTCATGTCAG
                                               tctttc  CT-rich tract
          attaactcattttatt  TA-rich tract