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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAACAAGTCGCCCTGCACATTATCATGTTCTGTGGGATGAGAACAAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttctttcatgtcattatatattgctatttaggagtacattattacaagactagtaagctaaccattgtccctgtaaccctattattgcag

Basic information

species Oryza sativa
transcript LOC_Os02g45070.1
intron # 21
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|86434895|gb|CI106128.1|CI106128
EST:     CTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: CTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|218479705|gb|FG950878.1|FG950878
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCGTTCCTC
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCGTTCCTC
EST: gi|88960427|gb|CI006388.1|CI006388
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|86429941|gb|CI082364.1|CI082364
EST:     AAGTTCACTGCTGATGGTTT-CAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|88478879|gb|CI416150.1|CI416150
EST:     ACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: ACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|86499428|gb|CI142061.1|CI142061
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|88476523|gb|CI413794.1|CI413794
EST:     GACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: GACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|58673688|gb|CK062374.1|CK062374
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|89181010|gb|CI045093.1|CI045093
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|86541213|gb|CI181419.1|CI181419
EST:     GAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|14571449|gb|BI118817.1|BI118817
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|88975433|gb|CI023684.1|CI023684
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|30226648|gb|CB964540.1|CB964540
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|38469760|gb|CF953891.1|CF953891
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|86257336|gb|CI004154.1|CI004154
EST:     CTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: CTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|24208382|gb|AU225409.1|AU225409
EST:     -AGTTCACTGCTGATGG-TTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|86430935|gb|CI083358.1|CI083358
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|86430269|gb|CI082692.1|CI082692
EST:     CTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: CTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|163926691|gb|EG713707.1|EG713707
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|163926747|gb|EG715035.1|EG715035
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|88232396|gb|CI232245.1|CI232245
EST:     AAGTTCACAGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|58670604|gb|CK059290.1|CK059290
EST:     AAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|218488951|gb|FG960688.1|FG960688
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|14571456|gb|BI118824.1|BI118824
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|29669480|gb|CB665755.1|CB665755
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|29657069|gb|CB653344.1|CB653344
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|88480630|gb|CI417901.1|CI417901
EST:     CTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: CTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|86431004|gb|CI083427.1|CI083427
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|88902628|gb|CI088166.1|CI088166
EST:     TTCACTGCTGATGGTTTGCGAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTTCGTATCAATCG
genomic: TTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|86521035|gb|CI161241.1|CI161241
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|29626579|gb|CB631590.1|CB631590
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGCCAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG
EST: gi|163929281|gb|EG712710.1|EG712710
EST:     AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACAC                         CTATGCAAGGTGCACCCGTTCCGTATCAATCG
genomic: AAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttct ... attattgcagCTATGCAAGGTGCACCCGTTCCGTATCAATCG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAACAAGTCGCCCTGCACATTATCATGTTCTGTGGGATGAGAACAAGTTCACTGCTGATGGTTTGCAAACTCTGACAAACAACTTGTGCTACACgtaattttctttcatgtcattatatattgctatttaggagtacattattacaagactagtaagctaaccattgtccctgtaaccctattattgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT