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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCCAGCCACTTGTGTATTTGCAAGCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgttccgcttgttgtgtttcgttatgtctcacaattaattctggttctgattatttgtttcgggaattgcag

Basic information

species Zea mays
transcript GRMZM2G133749_T02
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|78120250|gb|DV538634.1|DV538634
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
EST: gi|78110507|gb|DV528917.1|DV528917
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
EST: gi|71437477|gb|DR818527.1|DR818527
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
EST: gi|71449230|gb|DR830280.1|DR830280
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
EST: gi|31558468|gb|CD527680.1|CD527680
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
EST: gi|76287082|gb|DV026650.1|DV026650
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
EST: gi|86475107|gb|DY241477.1|DY241477
EST:     GCACCACTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATAT
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATAT
EST: gi|60394554|gb|DN227424.1|DN227424
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
EST: gi|211132517|gb|FL346748.1|FL346748
EST:     CACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACC-GTGGGGGAA                         CTCCGGTGCACATACGGAGCATATGATGCCATGAATGAAATACCTGCTGC
genomic: CACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGG-AAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGC
EST: gi|37418378|gb|CF646857.1|CF646857
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
EST: gi|78084101|gb|DV512494.1|DV512494
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
EST: gi|94478312|gb|EB707270.1|EB707270
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
EST: gi|78112774|gb|DV531168.1|DV531168
EST:     GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAA                         CTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA
genomic: GCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCA

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), 47 (downstream exon)
Score: 68

ACCCAGCCACTTGTGTATTTGCAAGCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCACTTTCGATTTCTTTCAATTCTTCAGGATCTAA


Block sizes: 45 (upstream exon), 48 (downstream exon)
Score: 27

ACCCAGCCACTTGTGTATTTGCAAGCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCACTTTCGATTTCTTTCAATTCTTCAGGATCTAA


Block sizes: 45 (upstream exon), 48 (downstream exon)
Score: 25

ACCCAGCCACTTGTGTATTTGCAAGCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCACTTTCGATTTCTTTCAATTCTTCAGGATCTAA


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 25

ACCCAGCCACTTGTGTATTTGCAAGCACCAGTCGTGATCATCCGATACACCTTTGGGATGCCACCAGTGGGGAAgtaagactgt ... ggaattgcagCTCCGGTGCACATACCGAGCATATGATGCCATGGATGAAATAACTGCTGCACTTTCGATTTCTTTCAATTCTTCAGGATCTAA