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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgacgtgaatccccgcacgcgcacgcatctcgtacctgtgtttcctttcgtagctgctgttcctcttttctgtgagagactacagctaagtgttttttttctttgttttcgcttggtcctgacgttgttcttggtttgatctgtctcgtgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT

Basic information

species Oryza sativa
transcript LOC_Os02g27769.1
intron # 2
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|66926521|gb|CX113369.1|CX113369
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88239061|gb|CI240223.1|CI240223
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|86419763|gb|CI054564.1|CI054564
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|89169784|gb|CI110143.1|CI110143
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|86418988|gb|CI053789.1|CI053789
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88283575|gb|CI405021.1|CI405021
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88237988|gb|CI237837.1|CI237837
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88979768|gb|CI026075.1|CI026075
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88214926|gb|CI212964.1|CI212964
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88988287|gb|CI037605.1|CI037605
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|33654259|gb|CF276873.1|CF276873
EST:     AGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: AGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88238780|gb|CI238629.1|CI238629
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|86256782|gb|CI061545.1|CI061545
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88963548|gb|CI029344.1|CI029344
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88992044|gb|CI035182.1|CI035182
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCGACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|86251449|gb|CI055582.1|CI055582
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88996308|gb|CI037599.1|CI037599
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|86420719|gb|CI056708.1|CI056708
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCGACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|88241823|gb|CI241672.1|CI241672
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT
EST: gi|12622591|gb|AU172804.1|AU172804
EST:     TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATG                         GATGTCAAGTGCCAGGGATGCTTCAACAT
genomic: TCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT

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: 68 (upstream exon), 29 (downstream exon)
Score: 114

GCTATCCAACGACATCGACCTCCTCAACCCTCCCGCGGAGCTCGAGAAGCTCAAGCACAAGAAGAAGCGCCTCGTGCAGTCCCCCAACTCATTCTTCATGgtatgacgtg ... tgtgttgcagGATGTCAAGTGCCAGGGATGCTTCAACAT




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