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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTGGCAATGATCCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacataacctgcaaatcttaacattcagcattgttttgtttacgcctgaccctttgctgcccttgtttttgcaaaacctgcag

Basic information

species Zea mays
transcript GRMZM2G100639_T01
intron # 14
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|9731443|gb|BE510195.1|BE510195
EST:     CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCTGCAGAGAG                         AATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
EST: gi|8930063|gb|BE224901.1|BE224901
EST:     GATCAGAATGTTTCTGCAGAGAG                         AATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: GATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
EST: gi|37392558|gb|CF633531.1|CF633531
EST:     CAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAG                         AATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: CAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
EST: gi|8930064|gb|BE224902.1|BE224902
EST:     GATCAGAATGTTTCTGCAGAGAG                         AATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: GATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
EST: gi|78024212|gb|DV492599.1|DV492599
EST:     CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAG                         AATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
EST: gi|40334809|gb|CK368879.1|CK368879
EST:     CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAG                         AATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
EST: gi|37378279|gb|CF625824.1|CF625824
EST:     CCAATGGATGTGGATGTAGGATCACATGATCAGAATGTTTCCGCAGAGAG                         AATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
EST: gi|6021880|gb|AW066808.1|AW066808
EST:     CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAG                         AATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
EST: gi|6654282|gb|AW267687.1|AW267687
EST:     CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCTGCAGAGAG                         AATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
EST: gi|9461361|gb|BE453695.1|BE453695
EST:     CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCTGCAGAGAG                         AATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT
EST: gi|6021895|gb|AW066823.1|AW066823
EST:     CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAG                         AATTGAAGCATTTGAAGCCCTTTTGGGTCAGCATGTGTTGGCAAACCATAT
genomic: CCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATAT

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: 302

CTCTGGCAATGATCCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATATAGATCAAATGTCAATTGATGATATCGAGCAGATGGTTAATAGGGAGTCA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 80

CTCTGGCAATGATCCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATATAGATCAAATGTCAATTGATGATATCGAGCAGATGGTTAATAGGGAGTCA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 62

CTCTGGCAATGATCCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATATAGATCAAATGTCAATTGATGATATCGAGCAGATGGTTAATAGGGAGTCA


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 27

CTCTGGCAATGATCCAATGGATGTGGATGTAGGATCAAATGATCAGAATGTTTCCGCAGAGAGgtcactacat ... aaacctgcagAATTGAAGCATTTGAAGCACTTCTGGGTCAGCATGTGTTGGCAAACCATATAGATCAAATGTCAATTGATGATATCGAGCAGATGGTTAATAGGGAGTCA