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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAAGAGGTGAAGAGGGGGGAGAAAGACGCGTCAAAGCCATCAACCAGATCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagcaaccatccccgcttccccttttcctcctccgattcgagatccatggcggggcctctgccgtgcggcacctcaaaccctctccggtcgtactctttgtctgcag

Basic information

species Oryza sativa
transcript LOC_Os05g36070.1
intron # 1
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|29623970|gb|CB628981.1|CB628981
EST:     TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
genomic: TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|29623040|gb|CB628051.1|CB628051
EST:     GATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
genomic: GATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|29623889|gb|CB628900.1|CB628900
EST:     TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
genomic: TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|88430334|gb|CI567353.1|CI567353
EST:     TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAG                         CAGGCGAGCAGATCTGAAGGCGCGGCCGGGCGACCTCCTCCCGCCTACCTC
genomic: TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|88422643|gb|CI571625.1|CI571625
EST:     TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
genomic: TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|88306913|gb|CI639334.1|CI639334
EST:     TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
genomic: TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|58656513|gb|CK045193.1|CK045193
EST:     ATCAATCGATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGG-CGGCCGACCTCCTCCCGCCTACCTC
genomic: ATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|29623038|gb|CB628049.1|CB628049
EST:     GATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
genomic: GATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|88308479|gb|CI650888.1|CI650888
EST:     TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
genomic: TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|88394364|gb|CI603553.1|CI603553
EST:     TCGATTGATACATCCATCCATAAATCGATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
genomic: TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|88725058|gb|CI748317.1|CI748317
EST:     ATCCATCAATCGATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
genomic: ATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
EST: gi|2275797|gb|C24774.1|C24774
EST:     TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAG                         CCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC
genomic: TCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTC

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: 69 (upstream exon), 37 (downstream exon)
Score: 3

GGCAAGAGGTGAAGAGGGGGGAGAAAGACGCGTCAAAGCCATCAACCAGATCGATTGATCCATCCATCCATCAATCGATCGATCGAGCGATCCAACCGAGgtacgcgagc ... ttgtctgcagCCGGCGAGCAGATCTGAAGGCGCGGCCGGCCGACCTCCTCCCGCCTACCTCAAGTCTCGTCTCGACTCGAATTGAAG




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