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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGAAAGTTCGGCCATTGGAACAGCACAGATGAAGTGGAGTTTTTCGAGTATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggcattttgtatatttcaacgaacaagctggtcatctttctaatgaataatgttcaatacag

Basic information

species Oryza sativa
transcript LOC_Os01g01790.1
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|29677187|gb|CB673462.1|CB673462
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|29623733|gb|CB628744.1|CB628744
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|25802741|gb|CA758702.1|CA758702
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|29624183|gb|CB629194.1|CB629194
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|29624596|gb|CB629607.1|CB629607
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|29630522|gb|CB635531.1|CB635531
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|27921302|gb|CB097110.1|CB097110
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|29622850|gb|CB627861.1|CB627861
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|29622533|gb|CB627544.1|CB627544
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|29617659|gb|CB622671.1|CB622671
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|22305855|gb|BQ907077.1|BQ907077
EST:     TTGAA-CAGTAAAGTTGACT-GTGATCTGAGTGT-CCT-CTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCCAAACGTCTTGAGAACCGTGG
genomic: TTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGG-CAAACGTCTTGAGAACCGTGG
EST: gi|29624598|gb|CB629609.1|CB629609
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|29669220|gb|CB665495.1|CB665495
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|29621884|gb|CB626895.1|CB626895
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT
EST: gi|29625044|gb|CB630055.1|CB630055
EST:     ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAG                         ATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTTTTGAGAACCGTGGT
genomic: ATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggc ... ttcaatacagATAACATTCCGTGCTAAGATTGGGAAGGGCAAACGTCTTGAGAACCGTGGT

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCGAAAGTTCGGCCATTGGAACAGCACAGATGAAGTGGAGTTTTTCGAGTATGTTGAAGCAGTAAAGTTGACTGGTGATCTGAGTGTCCCTGCTGGACAGgtttgcaggcattttgtatatttcaacgaacaagctggtcatctttctaatgaataatgttcaatacag

- - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA