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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGAACTCTGTCAAGTGGAGTTGAAATAGCTGTTCTGTCCACTTCAGTTAACTCTTCACAACAATGGTCAGCTCAGTCTGAGGAGCAATTCAGGAACAAGgtactcatttgttgtaatgatgaaaatcatacataattttagagtatagtactaactgttcttatttcag

Basic information

species Oryza sativa
transcript LOC_Os12g01510.4
intron # 8
splice site 5'
intron type U2

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|58691771|gb|CK080458.1|CK080458
EST:     ACTCTGCACAACAATGGTCTGCTCGGTCTGAGGAGCAATTCAGGAACAAG                         ATCTCGGTGCTATCCAGAGTGAACCATAAGAACTTCATGAACCTGATTGGT
genomic: ACTCTTCACAACAATGGTCAGCTCAGTCTGAGGAGCAATTCAGGAACAAGgtactcattt ... cttatttcagATCTCGGTGCTGTCCAGAGTGAACCATAAGAACTTCATGAACCTGATTGGT
EST: gi|58587574|gb|CF985882.1|CF985882
EST:     GTCAGCTCAGTCTGAGGAGCAATTCAGGAACAAG                         ATCTCGGGGCGGTCCAGAGTGAACCATAAGAACTTCATGAACCTGATTGGT
genomic: GTCAGCTCAGTCTGAGGAGCAATTCAGGAACAAGgtactcattt ... cttatttcagATCTCGGTGCTGTCCAGAGTGAACCATAAGAACTTCATGAACCTGATTGGT
EST: gi|58609301|gb|CK037334.1|CK037334
EST:     ACTCTTCACAACAATGGTCAGCTCAGTCTGAGGAGCAATTCAGGAACAAG                         ATCTCGGTGCTGTCCAGAGTGAACCATAAGAACTTCATGAACCTGATTGGT
genomic: ACTCTTCACAACAATGGTCAGCTCAGTCTGAGGAGCAATTCAGGAACAAGgtactcattt ... cttatttcagATCTCGGTGCTGTCCAGAGTGAACCATAAGAACTTCATGAACCTGATTGGT
EST: gi|29621673|gb|CB626684.1|CB626684
EST:     ACTCTTCACAACAATGGTCAGCTCAGTCTGAGGAGCAATTCAGGAACAAG                         ATCTCGGTGCTGTCCAGAGTGAACCATAAGAACTTCATGAACCTGATTGGT
genomic: ACTCTTCACAACAATGGTCAGCTCAGTCTGAGGAGCAATTCAGGAACAAGgtactcattt ... cttatttcagATCTCGGTGCTGTCCAGAGTGAACCATAAGAACTTCATGAACCTGATTGGT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGAACTCTGTCAAGTGGAGTTGAAATAGCTGTTCTGTCCACTTCAGTTAACTCTTCACAACAATGGTCAGCTCAGTCTGAGGAGCAATTCAGGAACAAGgtactcatttgttgtaatgatgaaaatcatacataattttagagtatagtactaactgttcttatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA