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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcagatgactcctctatttaacctgattagaaaacgttaaccccttggtccctcggtgtggctacatattcttacaatggatttgatttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACATGGAGCCGGATACTTCAGATAGTGGGTCGATGGCGAGCGGTGCCCATAC

Basic information

species Oryza sativa
transcript LOC_Os02g45070.2
intron # 22
splice site 3'
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|25799272|gb|CA755233.1|CA755233
EST:     CCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|86434895|gb|CI106128.1|CI106128
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|88960427|gb|CI006388.1|CI006388
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|86429941|gb|CI082364.1|CI082364
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|88478879|gb|CI416150.1|CI416150
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|86499428|gb|CI142061.1|CI142061
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACC
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTA-C
EST: gi|88476523|gb|CI413794.1|CI413794
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|88971446|gb|CI017760.1|CI017760
EST:     GCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: GCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|58673688|gb|CK062374.1|CK062374
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|89181010|gb|CI045093.1|CI045093
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|86541213|gb|CI181419.1|CI181419
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|14571449|gb|BI118817.1|BI118817
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|88975433|gb|CI023684.1|CI023684
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|30226648|gb|CB964540.1|CB964540
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|38469760|gb|CF953891.1|CF953891
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGGATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|86257336|gb|CI004154.1|CI004154
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|24208382|gb|AU225409.1|AU225409
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|86430935|gb|CI083358.1|CI083358
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCGCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|86430269|gb|CI082692.1|CI082692
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|163926691|gb|EG713707.1|EG713707
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|163926747|gb|EG715035.1|EG715035
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|88232396|gb|CI232245.1|CI232245
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|58670604|gb|CK059290.1|CK059290
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|218488951|gb|FG960688.1|FG960688
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|14571456|gb|BI118824.1|BI118824
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|29669480|gb|CB665755.1|CB665755
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|29657069|gb|CB653344.1|CB653344
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|88480630|gb|CI417901.1|CI417901
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|86431004|gb|CI083427.1|CI083427
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|88902628|gb|CI088166.1|CI088166
EST:     CTATGCAAGGTGCACCCGTTTCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|86521035|gb|CI161241.1|CI161241
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|29626579|gb|CB631590.1|CB631590
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
EST: gi|163929281|gb|EG712710.1|EG712710
EST:     CTATGCAAGGTGCACCCGTTCCGTATCAATCG                         TTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA
genomic: CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 50 (upstream exon), 26 (downstream exon)
Score: 2

CTATGCAAGGTGCACCCGTTCCGTATCAATCGgtaagcagat ... atttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACATGGAGCCGGATACTTCAGATAGTGGGTCGATGGCGAGCGGTGCCCATAC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccccttggtccctcggtgtggctacatattcttacaatggatttgatttctgcagTTCCTCCTGCATATTATGCCCATCTCGCGGCATTTCGAGCTCGATTTTACATGGAGCCGGATACTTCAGATAGTGGGTCGATGGCGAGCGGTGCCCATAC
                                              tttctgc  CT-rich tract
                         atattctta  TA-rich tract