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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcctctactgatgttcactatcagaactgtctttcacagaactatcagatacatatgtcaacttctagagagtcatataggctaagattttttt...

Basic information

species Oryza sativa
transcript LOC_Os03g03920.3
intron # 5
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|29672914|gb|CB669189.1|CB669189
EST:     AGAGCGAACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATTTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: AGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|88955460|gb|CI091552.1|CI091552
EST:     ACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: ACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|89176589|gb|CI111305.1|CI111305
EST:     CCCAGAGCGAACCCGATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: CCCAGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|88955489|gb|CI091581.1|CI091581
EST:     AGAGCGAACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: AGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|88849094|gb|CI087616.1|CI087616
EST:     CTGGCCCAGAGCGAACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: CTGGCCCAGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|88844161|gb|CI001218.1|CI001218
EST:     AGAGCGAACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: AGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|86482742|gb|CI125375.1|CI125375
EST:     AGAGCGAACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: AGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|157650080|gb|EX449714.1|EX449714
EST:     GCGAACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: GCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|87020032|gb|CI277764.1|CI277764
EST:     AGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: AGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|86500583|gb|CI143216.1|CI143216
EST:     AGAGCGAACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: AGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|86429591|gb|CI076272.1|CI076272
EST:     CCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCTACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: CCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|88850993|gb|CI096383.1|CI096383
EST:     GCTGGCCCAGAGCGAACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: GCTGGCCCAGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|86413823|gb|CI068030.1|CI068030
EST:     GCTGGCCCAGAGCGAACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: GCTGGCCCAGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
EST: gi|86486868|gb|CI129501.1|CI129501
EST:     AGAGCGAACCCAATCAGGTGCTGGTGCAG                         GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: AGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG

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: 75 (upstream exon), 75 (downstream exon)
Score: 57

AGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTGGTGGTGGCCTAGGTGTTCCTAGTGCACCCAATG




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