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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaatcccattgcctataatgatatgccatgcttttatgtatatctttcacttgtaacttaaatacttggtggtttgatgtatcagGTTTCTTCCATGCTAAAG

Basic information

species Zea mays
transcript GRMZM2G053019_T01
intron # 3
splice site 3'
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|71775343|gb|DR973221.1|DR973221
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|148962609|gb|EE013495.2|EE013495
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|148967401|gb|EE018626.2|EE018626
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|148986910|gb|EE030719.2|EE030719
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|71440817|gb|DR821867.1|DR821867
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|211172020|gb|FK988437.1|FK988437
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|32799699|gb|CD951935.1|CD951935
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|78108045|gb|DV526463.1|DV526463
EST:     TGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTTAC-ACG                         GTTTCTTCCATGCTAAAG
genomic: TGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTT-ACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|148941186|gb|EC886070.2|EC886070
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|71440311|gb|DR821361.1|DR821361
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|148972016|gb|EE022842.2|EE022842
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|211172010|gb|FK988427.1|FK988427
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|76019253|gb|DT946423.1|DT946423
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|76292083|gb|DV031651.1|DV031651
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|74235753|gb|DT643667.1|DT643667
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|78085071|gb|DV513464.1|DV513464
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|148940610|gb|EC885417.2|EC885417
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|211173687|gb|FK988440.1|FK988440
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|211173691|gb|FK988444.1|FK988444
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|211172016|gb|FK988433.1|FK988433
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|148932254|gb|EC875785.2|EC875785
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|149080112|gb|EE169131.2|EE169131
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|76020426|gb|DT947596.1|DT947596
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTAAAG
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG
EST: gi|148932491|gb|EC876253.2|EC876253
EST:     CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACG                         GTTTCTTCCATGCTA
genomic: CTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTA

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), 18 (downstream exon)
Score: 78

TGGTTCGCCTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG


Block sizes: 49 (upstream exon), 18 (downstream exon)
Score: 168

TGGTTCGCCTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG


Block sizes: 49 (upstream exon), 18 (downstream exon)
Score: 65

TGGTTCGCCTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG


Block sizes: 49 (upstream exon), 18 (downstream exon)
Score: 115

TGGTTCGCCTGTTTTCTGGATTGGAGTTGGTGTAGCATTGTCTGTGGCGTTTACCACGgtgtgaatcc ... gatgtatcagGTTTCTTCCATGCTAAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttatgtatatctttcacttgtaacttaaatacttggtggtttgatgtatcagGTTTCTTCCATGCTAAAG
                    ttgtaacttaaata  TA-rich tract