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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagctttattcttcattttttgttagatggcttccttccttagctgaaattctgaataagggagaagtacatgccaattgttccattgataaaagggattgtcctgatgaattacaatttatgttgcttatactgagatataatggcttgtgttcctactctactctgacagtcttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTTCAAGCTGTGTGGAGTGAAGATGGAGAATG

Basic information

species Zea mays
transcript GRMZM2G005737_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G005737_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g01840.1 (Oryza sativa), 3'ss of exon 3
gtagctttattcttcattttttgttagatggcttccttccttagctgaaattctgaataagggagaagtacatgccaattgttccattgataaaagggattgtcctgatgaattacaatttatgttgcttatactgagatataatggcttgtgttcctactctactctgacagtcttgtggcagGGACTGGATGACCTTTCACATTCCCAT---AAGTTTGCCGTTGGTACTAGAGTTCAAGCTGTGTGGAGTGAAGATGGAGAATG
                                                        ||  || ||   |||||     |||||  | | ||| |    ||  || ||              | || | |  | ||||||| ||     || || |   |  || |||||   || ||     ||| ||||||||||| ||| || ||||||   |||||||| ||||| |||| ||| ||||||||||||||||||||||| || ||
-------------------------------------------------------gatttggaagttttacat-----ttgttttactcatatagaaaatattcatg-------------cacgtggatctt-ctgagatgtatca--ttatgctaacatacttctctg---gtttt-----agGCACTGGATGACCCTTCGCAATCCCATGAGAAGTTTGCAGTTGGGACTAAAGTGCAAGCTGTGTGGAGTGAAGATGGGGAGTG
















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|211368456|gb|FL037566.1|FL037566
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211144983|gb|FK968676.1|FK968676
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211144990|gb|FK968683.1|FK968683
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211144986|gb|FK968679.1|FK968679
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211371102|gb|FL037574.1|FL037574
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211144976|gb|FK968669.1|FK968669
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211147843|gb|FK968702.1|FK968702
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211146425|gb|FK968698.1|FK968698
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATA
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATA
EST: gi|211146413|gb|FK968686.1|FK968686
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCT-AG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211144978|gb|FK968671.1|FK968671
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211371099|gb|FL037571.1|FL037571
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|71449332|gb|DR830382.1|DR830382
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211146412|gb|FK968685.1|FK968685
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211371101|gb|FL037573.1|FL037573
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|148939314|gb|EC883829.2|EC883829
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|93282956|gb|EB675220.1|EB675220
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211368451|gb|FL037561.1|FL037561
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211368454|gb|FL037564.1|FL037564
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|78075367|gb|DV503801.1|DV503801
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|31357633|gb|CD441990.1|CD441990
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211147844|gb|FK968703.1|FK968703
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGA
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGA
EST: gi|211368458|gb|FL037568.1|FL037568
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211146414|gb|FK968687.1|FK968687
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211143551|gb|FK968667.1|FK968667
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211146417|gb|FK968690.1|FK968690
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211144987|gb|FK968680.1|FK968680
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211147840|gb|FK968699.1|FK968699
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211144989|gb|FK968682.1|FK968682
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211144977|gb|FK968670.1|FK968670
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211143550|gb|FK968666.1|FK968666
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211368457|gb|FL037567.1|FL037567
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211371100|gb|FL037572.1|FL037572
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGT
EST: gi|211147846|gb|FK968705.1|FK968705
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211144984|gb|FK968677.1|FK968677
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211144981|gb|FK968674.1|FK968674
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGA
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGA
EST: gi|211144980|gb|FK968673.1|FK968673
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTTGCCGTTGGTACTA
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTT-GCCGTTGGTACTA
EST: gi|211146415|gb|FK968688.1|FK968688
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAG
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAG
EST: gi|211147848|gb|FK968707.1|FK968707
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211146420|gb|FK968693.1|FK968693
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAG
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAG
EST: gi|211144985|gb|FK968678.1|FK968678
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
EST: gi|211371098|gb|FL037570.1|FL037570
EST:     ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAG                         GGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT
genomic: ATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTT

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: 49 (upstream exon), 49 (downstream exon)
Score: 181

GTTAACCGAAGAGATTTTGGCAACTGCAAAGCAAACTGAGAGTGCCCAGAATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTTCAAGCTGTGTGGAGTGAAGATGGAGAATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 162

GTTAACCGAAGAGATTTTGGCAACTGCAAAGCAAACTGAGAGTGCCCAGAATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTTCAAGCTGTGTGGAGTGAAGATGGAGAATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 210

GTTAACCGAAGAGATTTTGGCAACTGCAAAGCAAACTGAGAGTGCCCAGAATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTTCAAGCTGTGTGGAGTGAAGATGGAGAATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 140

GTTAACCGAAGAGATTTTGGCAACTGCAAAGCAAACTGAGAGTGCCCAGAATGTTGCAGGTCTATCACCGCCAAGCTATTCAGCTGGAGTGCAGTCTGAGgtagctttat ... cttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTTCAAGCTGTGTGGAGTGAAGATGGAGAATG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatactgagatataatggcttgtgttcctactctactctgacagtcttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTTCAAGCTGTGTGGAGTGAAGATGGAGAATG
                                   ctctgac  putative branch site (score: 140)
       agatataat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagctttattcttcattttttgttagatggcttccttccttagctgaaattctgaataagggagaagtacatgccaattgttccattgataaaagggattgtcctgatgaattacaatttatgttgcttatactgagatataatggcttgtgttcctactctactctgacagtcttgtggcagGGACTGGATGACCTTTCACATTCCCATAAGTTTGCCGTTGGTACTAGAGTTCAAGCTGTGTGGAGTGAAGATGGAGAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
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