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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGCCTTCTTCTCCCTTGGTTTTTCCCTCGTGACATCACGGACACCAGCGGCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccgcgctcctccctagctccacccccatggtattcccctcccttggccatgcctcgagagtcgagacgatccaagcggattcatccacgcgagtctcagattcagatggcctaatcgatccaccatcgcatcgcatcgcaatttcttctctcatctaactcttcttcttcttcttctctcctttgccag

Basic information

species Oryza sativa
transcript LOC_Os02g57854.1
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|55433570|gb|CV729893.1|CV729893
EST:     GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAG                         TTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
genomic: GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccg ... cctttgccagTTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
EST: gi|88353826|gb|CI634617.1|CI634617
EST:     GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAG                         TTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
genomic: GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccg ... cctttgccagTTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
EST: gi|88334071|gb|CI641122.1|CI641122
EST:     GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAG                         TTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
genomic: GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccg ... cctttgccagTTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
EST: gi|112785856|gb|EE591550.1|EE591550
EST:     GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAG                         TTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
genomic: GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccg ... cctttgccagTTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
EST: gi|88363322|gb|CI643180.1|CI643180
EST:     GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAG                         TTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
genomic: GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccg ... cctttgccagTTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
EST: gi|88310002|gb|CI657426.1|CI657426
EST:     GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAG                         TTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
genomic: GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccg ... cctttgccagTTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
EST: gi|88339191|gb|CI633762.1|CI633762
EST:     GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAG                         TTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
genomic: GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccg ... cctttgccagTTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
EST: gi|86910935|gb|CI294835.1|CI294835
EST:     GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAG                         TTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
genomic: GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccg ... cctttgccagTTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
EST: gi|3761016|gb|C98270.1|C98270
EST:     CGATCGGCGGACCCGCCTCAGT                         TTAGTTAGTTAAAGTTTCCCCATGGCCGGGGAGCCCCAGCATCCCGACCA
genomic: CGATCGGC-GA-CCGCCTCAG-gtgagctccg ... cctttgccagTTAGTTAGTT-AAGTTT--CCATGG-CGGGGAGGCCCAGCATCCCGACCA
EST: gi|3761016|gb|C98270.1|C98270
EST:     CGATCGGCGGACCCGCCTCAGT                         TTAGTTAGTTAAAGTTTCCCCATGGCCGGGGAGCCCCAGCATCCCGACCA
genomic: CGATCGGC-GA-CCGCCTCAG-gtgagctccg ... cctttgccagTTAGTTAGTT-AAGTTT--CCATGG-CGGGGAGGCCCAGCATCCCGACCA
EST: gi|88333055|gb|CI640898.1|CI640898
EST:     GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAG                         TTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC
genomic: GCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccg ... cctttgccagTTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGC

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: 41 (upstream exon), 73 (downstream exon)
Score: 7

TCGCCTTCTTCTCCCTTGGTTTTTCCCTCGTGACATCACGGACACCAGCGGCGATCCATCGGCGATCCACCGCGCGCGCTTCGATCGGCGACCGCCTCAGgtgagctccg ... cctttgccagTTAGTTAGTTAAGTTTCCATGGCGGGGAGGCCCAGCATCCCGACCAACAGCTCCGCTCTCATCGCCATCATCGCCGACGAG




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