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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAAAGGCAGTCAATTGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCAgtaagttcttcagctatagtattatcttagattgtatagcaaccgatcattgcgttacttgataatttaaatttctgcatatctcgcag

Basic information

species Zea mays
transcript GRMZM2G178822_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|60345317|gb|DN212290.1|DN212290
EST:     TGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCA                         TCACTATGCTCATGG
genomic: TGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCAgtaagttctt ... tatctcgcagTCACTATGCTCATGG
EST: gi|31361016|gb|CD445373.1|CD445373
EST:     TGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGATCTCATCTCA                         TCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTC
genomic: TGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCAgtaagttctt ... tatctcgcagTCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTC
EST: gi|67015254|gb|CO444003.1|CO444003
EST:     TGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGATCTCATCTCA                         TCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTC
genomic: TGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCAgtaagttctt ... tatctcgcagTCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTC
EST: gi|60352824|gb|DN219797.1|DN219797
EST:     TGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCA                         TCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTC
genomic: TGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCAgtaagttctt ... tatctcgcagTCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTC
EST: gi|28188021|gb|CB179631.1|CB179631
EST:     GTAGCGAGGCAATTGACCTCATCTCA                         TCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTC
genomic: GTAGCGAGGCAATTGACCTCATCTCAgtaagttctt ... tatctcgcagTCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTC
EST: gi|211493408|gb|FL041695.1|FL041695
EST:     TGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCMATTGACCTCATCTCA                         TCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTC
genomic: TGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCAgtaagttctt ... tatctcgcagTCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTC

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), 49 (downstream exon)
Score: 304

ACCAAAGGCAGTCAATTGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCAgtaagttctt ... tatctcgcagTCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTCCAGCATACCTTCTTCCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 201

ACCAAAGGCAGTCAATTGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCAgtaagttctt ... tatctcgcagTCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTCCAGCATACCTTCTTCCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 174

ACCAAAGGCAGTCAATTGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCAgtaagttctt ... tatctcgcagTCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTCCAGCATACCTTCTTCCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 265

ACCAAAGGCAGTCAATTGTCTGAGGTGATGACAACAGCTAGTAGCGAGGCAATTGACCTCATCTCAgtaagttctt ... tatctcgcagTCACTATGCTCATGGGATCCTAGCAAGAGACCAAAGGCCACAGAAGTCCTCCAGCATACCTTCTTCCAG