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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAAAATTCTCCAGGAATCTTGTTAAGATCTTGAGGGAAGCTGGCCAGGTTGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcctctctatttcagtttttcttttggatagtattatgttatttccttattttctaatcgatttgtatctgtgtttag

Basic information

species Oryza sativa
transcript LOC_Os01g68320.3
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|29641837|gb|CB646844.1|CB646844
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|58689074|gb|CK077761.1|CK077761
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|88440270|gb|CI546565.1|CI546565
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|29629072|gb|CB634083.1|CB634083
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|58690751|gb|CK079438.1|CK079438
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|88985321|gb|CI002838.1|CI002838
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|29629225|gb|CB634236.1|CB634236
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|58669238|gb|CK057924.1|CK057924
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|25801286|gb|CA757247.1|CA757247
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|86845698|gb|CI347004.1|CI347004
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCTAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|29627566|gb|CB632577.1|CB632577
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|88456943|gb|CI529144.1|CI529144
EST:     AATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCTTGGTGGGTTTGGTAACAGATCTGGCT
genomic: AATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|86257306|gb|CI004124.1|CI004124
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|88985341|gb|CI002858.1|CI002858
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGTTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|29663875|gb|CB660150.1|CB660150
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|58688943|gb|CK077630.1|CK077630
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|88428193|gb|CI557087.1|CI557087
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|29631238|gb|CB636247.1|CB636247
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|18387593|gb|BM420791.1|BM420791
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|29645319|gb|CB650326.1|CB650326
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|58690951|gb|CK079638.1|CK079638
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|88830895|gb|CI079329.1|CI079329
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|88368417|gb|CI561491.1|CI561491
EST:     TGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|29632884|gb|CB637893.1|CB637893
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATTTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|58694915|gb|CK083602.1|CK083602
EST:     TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAG                         GAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
genomic: TGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT
EST: gi|88286464|gb|CI524963.1|CI524963
EST:     ATCTGCCAGTTCTATGGGAG                         GA-GCAATTTCCGNTCAAGGGGGCGTGGTGGGTTTGGTNACAGATCTGGCT
genomic: ATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCT

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: 64 (upstream exon), 65 (downstream exon)
Score: 8

GCAAAATTCTCCAGGAATCTTGTTAAGATCTTGAGGGAAGCTGGCCAGGTTGTGAATCCAGCGCTAGAATCTATGGCTAAATCTGCCAGTTCTATGGGAGgtaggtgcct ... ctgtgtttagGAGGCAATTTCCGGTCAAGGGGGCGTGGTGGGTTTGGTAACAGATCTGGCTCAAATAGCATTCCCATAAGAGGAAGAAGGCCATACTGAGGGCGGCAAAA




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