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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtacgttggaagggatgacagtttcttattattattttattgccaaaaaaacgaactcgtttctcatttataaaggaaaatacaagtttgatatgactattttgttttctgattattgttgtgatgcagAGTTGTTCGGAATAGAGAG

Basic information

species Zea mays
transcript GRMZM2G334225_T02
intron # 2
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|211520163|gb|FL238537.1|FL238537
EST:     GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGG                         AGTTGTTCGGAATAGAGAG
genomic: GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGGgtacgtacgt ... tgtgatgcagAGTTGTTCGGAATAGAGAG
EST: gi|211397001|gb|FL238526.1|FL238526
EST:     GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGG                         AGTTGTTCGGAATAGAGAG
genomic: GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGGgtacgtacgt ... tgtgatgcagAGTTGTTCGGAATAGAGAG
EST: gi|211397005|gb|FL238530.1|FL238530
EST:     GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGG                         AGTTGTTCGGAATAGAGAG
genomic: GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGGgtacgtacgt ... tgtgatgcagAGTTGTTCGGAATAGAGAG
EST: gi|71444358|gb|DR825408.1|DR825408
EST:     GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGG                         AGTTGTTCGGAATAGAGAG
genomic: GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGGgtacgtacgt ... tgtgatgcagAGTTGTTCGGAATAGAGAG
EST: gi|211520159|gb|FL238533.1|FL238533
EST:     GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGG                         AGTTGTTCGGAATAGAGAG
genomic: GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGGgtacgtacgt ... tgtgatgcagAGTTGTTCGGAATAGAGAG
EST: gi|211520161|gb|FL238535.1|FL238535
EST:     GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGANGAGG                         AGTTGTTCGGAATAGAGAG
genomic: GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGGgtacgtacgt ... tgtgatgcagAGTTGTTCGGAATAGAGAG
EST: gi|211397003|gb|FL238528.1|FL238528
EST:     GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGG                         AGTTGTTCGGAATAGAGAG
genomic: GAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGGgtacgtacgt ... tgtgatgcagAGTTGTTCGGAATAGAGAG

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 1 RNA-Seqlibrary.


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 187

GATCGAGGACGTGATCACGAGGTACATCAATCTCCCGGAGCACGACAGAGGAGGgtacgtacgt ... tgtgatgcagAGTTGTTCGGAATAGAGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaaaatacaagtttgatatgactattttgttttctgattattgttgtgatgcagAGTTGTTCGGAATAGAGAG
                                ttctgat  putative branch site (score: 187)
                       tattttgtttt  TA-rich tract