Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGAAGGGCATCGGTGATGGATCAGTAAGCTATGGAATGGATGATGCAGACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtttgtttccattgcttactcttgtactcataatcttcatatgtaactgttgcgttctgagctcgacgctttcttgttgatatatatttggtttcgaacatttgaatttttgatag

Basic information

species Oryza sativa
transcript LOC_Os12g41220.1
intron # 2
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|89186841|gb|CI052254.1|CI052254
EST:     GTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
genomic: GTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|86594483|gb|CI253382.1|CI253382
EST:     ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
genomic: ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|88202676|gb|CI201031.1|CI201031
EST:     ATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACGAGGAC
genomic: ATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|88976081|gb|CI024324.1|CI024324
EST:     ACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
genomic: ACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|218484853|gb|FG952402.1|FG952402
EST:     ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
genomic: ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|86596069|gb|CI266572.1|CI266572
EST:     ACGATATTTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
genomic: ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|86506371|gb|CI149004.1|CI149004
EST:     GTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
genomic: GTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|58679822|gb|CK068509.1|CK068509
EST:     ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
genomic: ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|88349269|gb|CI678245.1|CI678245
EST:     ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
genomic: ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|33815684|gb|CF333693.1|CF333693
EST:     GACAGGCACAATTATTGGTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
genomic: GACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|88735525|gb|CI759033.1|CI759033
EST:     ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGAGAAGGAC
genomic: ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
EST: gi|87036157|gb|CI189604.1|CI189604
EST:     ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAAC                         ACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC
genomic: ACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGAC

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: 74 (upstream exon), 71 (downstream exon)
Score: 80

GGAGAAGGGCATCGGTGATGGATCAGTAAGCTATGGAATGGATGATGCAGACGATATCTACATGCGCTCTTGGACAGGCACAATTATTGGTCCCCATAACgtaagttgtt ... tttttgatagACTGTCCATGAGGGCCGGATATACCAACTGAAGCTTTTCTGCGACAAGGACTACCCAGACAGGCCACCAACTGTAAAATTTCACTCAAGAATCAACATGA




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