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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCGTGGCCATGGCGGTCTCCGGTGCGGCGCATTGAGCCCAGCGTGCGAGGGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcctcgctggggttgttcgacgccgtcgcgcggaagatttgagcctcttctcctcgggtttcatggttttttcctgactggttgttgcttgagttgttgggcggcagcag

Basic information

species Oryza sativa
transcript LOC_Os02g49760.3
intron # 2
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|88391600|gb|CI600789.1|CI600789
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGCAG                       
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGG-A--AGgtgagctcct ... gcggcagc
EST: gi|88367250|gb|CI564014.1|CI564014
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         AGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcagAGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
EST: gi|88762424|gb|CI771980.1|CI771980
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         AGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcagAGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
EST: gi|88406305|gb|CI596432.1|CI596432
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         AGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcagAGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
EST: gi|88327994|gb|CI648399.1|CI648399
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         C
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcag-
EST: gi|88327994|gb|CI648399.1|CI648399
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         C
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcag-
EST: gi|88307477|gb|CI643321.1|CI643321
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         C
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcag-
EST: gi|88307477|gb|CI643321.1|CI643321
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         C
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcag-
EST: gi|88423254|gb|CI576379.1|CI576379
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         AGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcagAGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
EST: gi|88424398|gb|CI607984.1|CI607984
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAT                         AGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcagAGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
EST: gi|88389072|gb|CI595306.1|CI595306
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         C
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcag-
EST: gi|88389072|gb|CI595306.1|CI595306
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         C
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcag-
EST: gi|88454228|gb|CI567833.1|CI567833
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         C
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcag-
EST: gi|88454228|gb|CI567833.1|CI567833
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         C
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcag-
EST: gi|88312007|gb|CI580172.1|CI580172
EST:     GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAG                         AGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC
genomic: GGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcct ... gcggcagcagAGGAGGAGGAGGGCGAGGGAGTCATGGGGAGCGTCGCTGCTGCTCGCGTAC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCGTGGCCATGGCGGTCTCCGGTGCGGCGCATTGAGCCCAGCGTGCGAGGGGGCATGGATCTGGAGGCCGCGCATGGCGCGGCTGCGGCGCCAGGGAAGgtgagctcctcgctggggttgttcgacgccgtcgcgcggaagatttgagcctcttctcctcgggtttcatggttttttcctgactggttgttgcttgagttgttgggcggcagcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG