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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCGAACTTTTCAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttctatccttggtgttttgcgcagcacctgaaatactagttctttgaatgcttaacaatcgatcattggtgtgatgtacagtgctgcatgtattt...

Basic information

species Zea mays
transcript GRMZM2G010146_T03
intron # 4
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|211038848|gb|FL245344.1|FL245344
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|71302504|gb|DR787370.1|DR787370
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTG
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTG
EST: gi|32859647|gb|CD999328.1|CD999328
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|211038853|gb|FL245349.1|FL245349
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|76292671|gb|DV032239.1|DV032239
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCAAAAAA-GGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|148930227|gb|EC872669.2|EC872669
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|211513208|gb|FL479766.1|FL479766
EST:     ACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: ACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|71302502|gb|DR787369.1|DR787369
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|76930391|gb|DV172363.1|DV172363
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|71316462|gb|DR794908.1|DR794908
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|78118287|gb|DV536673.1|DV536673
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|211038850|gb|FL245346.1|FL245346
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|101393644|gb|EB818754.1|EB818754
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGC
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGC
EST: gi|32859646|gb|CD999327.1|CD999327
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|76930392|gb|DV172364.1|DV172364
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|71436488|gb|DR817538.1|DR817538
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|76918988|gb|DV167546.1|DV167546
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|211038851|gb|FL245347.1|FL245347
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|211038847|gb|FL245343.1|FL245343
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|14243987|gb|BG841705.2|BG841705
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGCNNNNNNNGGTCCATTTCATGTTCTTTAGCGTGA
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGA
EST: gi|148944695|gb|EC889832.2|EC889832
EST:     CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAG                         ACAATGGGTTGGTGAGGC
genomic: CAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGC

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: 47 (upstream exon), 48 (downstream exon)
Score: 49

GTGCGAACTTTTCAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGATATCACCATTTCGTGGATGGTAGACTTTTCTGGTGGAAAATTTGCACAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 100

GTGCGAACTTTTCAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGATATCACCATTTCGTGGATGGTAGACTTTTCTGGTGGAAAATTTGCACAG


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 82

GTGCGAACTTTTCAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGATATCACCATTTCGTGGATGGTAGACTTTTCTGGTGGAAAATTTGCACAG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 43

GTGCGAACTTTTCAACAAACATCTCGATCAATACGTGAGAACAATAATTTGATGTCATTGAGgtaatttcta ... ttatttgcagACAATGGGTTGGTGAGGCAAAAAAAGGTCCATTTCATGTTCTTTAGCGTGATATCACCATTTCGTGGATGGTAGACTTTTCTGGTGGAAAATTTGCACAG