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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACAATCTTTGACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgcttttatcctgaactatgctcaccctctcctcatattaactgcctgttgcacatctgaacctttggtttgcacttttag

Basic information

species Oryza sativa
transcript LOC_Os03g50480.2
intron # 8
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|58663537|gb|CK052223.1|CK052223
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|58695799|gb|CK084486.1|CK084486
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|58693865|gb|CK082552.1|CK082552
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|58675297|gb|CK063984.1|CK063984
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCT
EST: gi|45244957|gb|AB118181.1|AB118181
EST:     CCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: CCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|58657583|gb|CK046263.1|CK046263
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|58596192|gb|CK006720.1|CK006720
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|29664693|gb|CB660968.1|CB660968
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|58654844|gb|CK043524.1|CK043524
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGT
EST: gi|58682481|gb|CK071168.1|CK071168
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|15008682|gb|AU223070.1|AU223070
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|58670270|gb|CK058956.1|CK058956
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|58597742|gb|CK008270.1|CK008270
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|29689390|gb|CB685665.1|CB685665
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|58601534|gb|CK012062.1|CK012062
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
EST: gi|12622980|gb|AU173193.1|AU173193
EST:     GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTG                         TTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT
genomic: GACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGT

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: 60 (upstream exon), 71 (downstream exon)
Score: 84

GACAATCTTTGACTTTGAGTCAATTAAAAAGCTTCTGGCATCTCCGAAGTTTACATTCTGgtactcgctt ... gcacttttagTTATGATGCTCTCCATGGTGTTGCTGGGACTTACGCAACACGCATCTTTGTGGAAGAGCTTGGTGCTGCTGAAAGCTCATTGTTGAACTGTGTTCCGAAG




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