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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATAGAGAGAGATGGCAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgctgtgtgaatttggtgcagtactgaagagcatgcatctactgtagcatctcgaatcatctatgtttccttgaaaaaaaatgcag

Basic information

species Zea mays
transcript GRMZM2G058498_T01
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|37418983|gb|CF647165.1|CF647165
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211052947|gb|FL232812.1|FL232812
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|71319015|gb|DR796255.1|DR796255
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211049994|gb|FL232801.1|FL232801
EST:     CAAGTCTAACCGGGCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|71435207|gb|DR816257.1|DR816257
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211049997|gb|FL232804.1|FL232804
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211052943|gb|FL232808.1|FL232808
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|67019316|gb|CO448065.1|CO448065
EST:     CATGTCTAACCGGCCTCACCG-G-ACCCT-ATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211052951|gb|FL232816.1|FL232816
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|31355022|gb|CD439379.1|CD439379
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211050000|gb|FL232807.1|FL232807
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|32915973|gb|CF020785.1|CF020785
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|71427496|gb|DR808546.1|DR808546
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211049999|gb|FL232806.1|FL232806
EST:     CAAGTYTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTSGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211052950|gb|FL232815.1|FL232815
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211052945|gb|FL232810.1|FL232810
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211052956|gb|FL232821.1|FL232821
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|78092605|gb|DV520979.1|DV520979
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211052946|gb|FL232811.1|FL232811
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211049992|gb|FL232799.1|FL232799
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|71765073|gb|DR963010.1|DR963010
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211049998|gb|FL232805.1|FL232805
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|32868065|gb|CF007747.1|CF007747
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|62550552|gb|DN830972.1|DN830972
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|71310174|gb|DR791376.1|DR791376
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211049995|gb|FL232802.1|FL232802
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211052953|gb|FL232818.1|FL232818
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211052952|gb|FL232817.1|FL232817
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|50339684|gb|CO534810.1|CO534810
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGACCAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|33102995|gb|CF062955.1|CF062955
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|211052949|gb|FL232814.1|FL232814
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|32943595|gb|CF048414.1|CF048414
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGGCTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
EST: gi|67024188|gb|CO452937.1|CO452937
EST:     CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAG                         ATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG
genomic: CAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAG

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 4 RNA-Seq libraries.


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 123

GCATAGAGAGAGATGGCAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAGAGTAATCTGCTTGTGGCAACCTCCTGGGATAACCAG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 106

GCATAGAGAGAGATGGCAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAGAGTAATCTGCTTGTGGCAACCTCCTGGGATAACCAG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 109

GCATAGAGAGAGATGGCAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAGAGTAATCTGCTTGTGGCAACCTCCTGGGATAACCAG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 41

GCATAGAGAGAGATGGCAAGTCTAACCGGCCTCACCGCGAACCCTAATCCGAACAAGTCATTCGAGgtgctttgct ... aaaaatgcagATACTGCCGAACCCAGGTGACTCTGTCTCCAGCCTCAGCTTTAGTCCCAAGAGTAATCTGCTTGTGGCAACCTCCTGGGATAACCAG