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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCTCGACGGCCGCCACCCCGCTTAGGTTTAGGTCTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttctcctcgccgccgccgccgcctcctccctcgcgttccgtcgatccatcgagcgtggctgatctcttcgtttccgtgtttgtgtgttgcgaatttttccggcggcgcag

Basic information

species Oryza sativa
transcript LOC_Os05g49030.1
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|88762797|gb|CI772353.1|CI772353
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|27577222|gb|CA999916.1|CA999916
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|33809687|gb|CF330733.1|CF330733
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88570392|gb|CI661765.1|CI661765
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|66913967|gb|CX100815.1|CX100815
EST:     CTCCGCCTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|58612568|gb|CK040280.1|CK040280
EST:     CTCCGCCTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTAGCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88316271|gb|CI620549.1|CI620549
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88360864|gb|CI625170.1|CI625170
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88724283|gb|CI747542.1|CI747542
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|25802968|gb|CA758929.1|CA758929
EST:     CTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88760669|gb|CI770225.1|CI770225
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|163919924|gb|EG710366.1|EG710366
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88342388|gb|CI645910.1|CI645910
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88310812|gb|CI659415.1|CI659415
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|11442991|gb|BF430881.1|BF430881
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|117216825|gb|CT845220.1|CT845220
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|58589076|gb|CF987384.1|CF987384
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCG-CGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88695561|gb|CI737599.1|CI737599
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88351680|gb|CI617405.1|CI617405
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|218481926|gb|FG946002.1|FG946002
EST:     CTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88745043|gb|CI768403.1|CI768403
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|58689508|gb|CK078195.1|CK078195
EST:     CTCCG-CTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88340869|gb|CI637029.1|CI637029
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|58691919|gb|CK080606.1|CK080606
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|218505513|gb|FG963988.1|FG963988
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|426271|gb|D22132.1|D22132
EST:     CCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|38565641|gb|CK085094.1|CK085094
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88377724|gb|CI605559.1|CI605559
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|27577519|gb|CB000214.1|CB000214
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|163925551|gb|EG715396.1|EG715396
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|58690967|gb|CK079654.1|CK079654
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88735915|gb|CI757490.1|CI757490
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|163923318|gb|EG711089.1|EG711089
EST:     CTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|38481748|gb|CF965823.1|CF965823
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|33663305|gb|CF294272.1|CF294272
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88760652|gb|CI770208.1|CI770208
EST:     CTTCTCCGTCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88740617|gb|CI764125.1|CI764125
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|88740217|gb|CI763725.1|CI763725
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
EST: gi|325493467|gb|JG457991.1|JG457991
EST:     CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGCCGAAATGGTCGCCTACAGG                         TTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG
genomic: CTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAG

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), 75 (downstream exon)
Score: 66

CCCTCGACGGCCGCCACCCCGCTTAGGTTTAGGTCTTCTCCGCCTCCGGTTTCTCCCTCCGCCGTCGAAATGGTCGCCTACAGGgtaagcttct ... ggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAGCACCCCAAGATCTACCGCATGAAGCTCTGGGCCACCAACGAGGTCCGCG




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