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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGTTAAAATAAAATATGCTTGGATGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctctagtcttcatgtacagaattcagttgctagatcatcctgttacgtttgtccttttttaatcctgcagcattttagtttacgtaagttgtct...

Basic information

species Oryza sativa
transcript LOC_Os01g71590.1
intron # 3
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|58600749|gb|CK011277.1|CK011277
EST:     TGGGCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTT
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTT
EST: gi|29680926|gb|CB677201.1|CB677201
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|58604063|gb|CK014591.1|CK014591
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|88361566|gb|CI605347.1|CI605347
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|88422035|gb|CI611655.1|CI611655
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCC
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCC
EST: gi|58658388|gb|CK047068.1|CK047068
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|58663381|gb|CK052067.1|CK052067
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTT
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCC-TTCTTTGATATATCTCCCCGCTTGGACTCCGTCTT
EST: gi|88301553|gb|CI597246.1|CI597246
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|29655883|gb|CB652158.1|CB652158
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|88373323|gb|CI614659.1|CI614659
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATAT
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATAT
EST: gi|58669703|gb|CK058389.1|CK058389
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|88359595|gb|CI621126.1|CI621126
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|58668871|gb|CK057557.1|CK057557
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|33673283|gb|CF301522.1|CF301522
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|117240086|gb|CT848247.1|CT848247
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|88300596|gb|CI587400.1|CI587400
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTG
EST: gi|88695274|gb|CI739312.1|CI739312
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTT
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTT
EST: gi|58683986|gb|CK072673.1|CK072673
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTTCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|396941553|gb|HO188762.1|HO188762
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|58692413|gb|CK081100.1|CK081100
EST:     CTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: CTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|58655266|gb|CK043946.1|CK043946
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|58667427|gb|CK056113.1|CK056113
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|58674390|gb|CK063076.1|CK063076
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|88300028|gb|CI580089.1|CI580089
EST:     TGGCCAAGTC-TTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|33676592|gb|CF304831.1|CF304831
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|88354687|gb|CI613965.1|CI613965
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|88294643|gb|CI602363.1|CI602363
EST:     GGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCCTAACCCTCAG                         GTGGTGCGGGATGCCTTC
genomic: GGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCC-TACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTC
EST: gi|88421803|gb|CI621447.1|CI621447
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTC
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTC
EST: gi|88361001|gb|CI625307.1|CI625307
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATAT
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATAT
EST: gi|58658133|gb|CK046813.1|CK046813
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|33676340|gb|CF304579.1|CF304579
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|88397281|gb|CI580791.1|CI580791
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGGCTTCTTTGA
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGA
EST: gi|58660697|gb|CK049377.1|CK049377
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
EST: gi|88336970|gb|CI627050.1|CI627050
EST:     TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAG                         GTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG
genomic: TGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTG

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: 73 (upstream exon), 75 (downstream exon)
Score: 80

TGGGTTAAAATAAAATATGCTTGGATGGCCAAGTCCTTAACAAATGATATAATCATCCCAGACCCTACCCCTCAGgttgctctct ... accaatttagGTGGTGCGGGATGCCTTCTTTGATATATCTCCCCGCTTGGACTCCGTCTTGAGAAAGGACAGTGTCCGGTGCTTCTTCCGTTTGTTCGCGGAATGTACTG




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