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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatcactaccacataactatcatttcagaagttttagagaaagcttaaattacccacctgttctttgtacagGTTACTTTGTGGTGTACAGATTCTCTGAAGCCTAAATCCTTCCTGGAAGAGCACTCGTTTCTTATCACTGATGTTAGATTTAGCCCAAGCATGTCGCGCC

Basic information

species Zea mays
transcript GRMZM2G022383_T01
intron # 13
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|60355397|gb|DN222370.1|DN222370
EST:     ACTTCTCAGCTGATGGTAAGCTGCTTGCTACTGGTGGTCATGATAAAAAG                         GTTACTTTGTGGTGTACAGATTCTCTGAAGCCTAAATCCTTCCTGGAAGAG
genomic: ACTTCTCAGCTGATGGTAAGCTGCTTGCTACTGGTGGTCATGATAAAAAGgtatgatcac ... ctttgtacagGTTACTTTGTGGTGTACAGATTCTCTGAAGCCTAAATCCTTCCTGGAAGAG




















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: 133

TTCTGAGGTTGCCAAAGCACGTGCAAGTGCAGCCAAAGTTGTCTGTTGCCACTTCTCAGCTGATGGTAAGCTGCTTGCTACTGGTGGTCATGATAAAAAGgtatgatcac ... ctttgtacagGTTACTTTGTGGTGTACAGATTCTCTGAAGCCTAAATCCTTCCTGGAAGAGCACTCGTTTCTTATCACTGATGTTAGATTTAGCCCAAGCATGTCGCGCC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 86

TTCTGAGGTTGCCAAAGCACGTGCAAGTGCAGCCAAAGTTGTCTGTTGCCACTTCTCAGCTGATGGTAAGCTGCTTGCTACTGGTGGTCATGATAAAAAGgtatgatcac ... ctttgtacagGTTACTTTGTGGTGTACAGATTCTCTGAAGCCTAAATCCTTCCTGGAAGAGCACTCGTTTCTTATCACTGATGTTAGATTTAGCCCAAGCATGTCGCGCC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 93

TTCTGAGGTTGCCAAAGCACGTGCAAGTGCAGCCAAAGTTGTCTGTTGCCACTTCTCAGCTGATGGTAAGCTGCTTGCTACTGGTGGTCATGATAAAAAGgtatgatcac ... ctttgtacagGTTACTTTGTGGTGTACAGATTCTCTGAAGCCTAAATCCTTCCTGGAAGAGCACTCGTTTCTTATCACTGATGTTAGATTTAGCCCAAGCATGTCGCGCC


Block sizes: 49 (upstream exon), 44 (downstream exon)
Score: 108

TTCTGAGGTTGCCAAAGCACGTGCAAGTGCAGCCAAAGTTGTCTGTTGCCACTTCTCAGCTGATGGTAAGCTGCTTGCTACTGGTGGTCATGATAAAAAGgtatgatcac ... ctttgtacagGTTACTTTGTGGTGTACAGATTCTCTGAAGCCTAAATCCTTCCTGGAAGAGCACTCGTTTCTTATCACTGATGTTAGATTTAGCCCAAGCATGTCGCGCC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcatttcagaagttttagagaaagcttaaattacccacctgttctttgtacagGTTACTTTGTGGTGTACAGATTCTCTGAAGCCTAAATCCTTCCTGGAAGAGCACTCGTTTCTTATCACTGATGTTAGATTTAGCCCAAGCATGTCGCGCC
                                   cccacctgttcttt  CT-rich tract
                           ttaaatta  TA-rich tract