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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaacataatttactggctaaccatttcgtagaaaagatccattttcccctgatgttggtgctgctggcttatcatttcatttgttcatatttccttcagGTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCATTACAGTCAG

Basic information

species Zea mays
transcript GRMZM2G132084_T03
intron # 7
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|78076716|gb|DV505150.1|DV505150
EST:     AATCAAGTGCTTACTTGGTTAATGGAATTCTGATGTTTGTTGCATGGCTG                         GTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCAT
genomic: AATCAAGTGCTTACTTGGTTAATGGAATTCTGATGTTTGTTGCATGGCTGgtatgcacca ... tttccttcagGTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCAT
EST: gi|101387190|gb|EB815612.1|EB815612
EST:     AATCAAGTGCTTACTTGGTTAATGGAATTCTGATGTTTGTTGCATGGCTG                         GTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCAT
genomic: AATCAAGTGCTTACTTGGTTAATGGAATTCTGATGTTTGTTGCATGGCTGgtatgcacca ... tttccttcagGTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCAT
EST: gi|211111684|gb|FL466622.1|FL466622
EST:     AATCAAGTGCTTACTTGGTTAATGGAATTCTGATGTTTGTTGCATGGCTG                         GTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCAT
genomic: AATCAAGTGCTTACTTGGTTAATGGAATTCTGATGTTTGTTGCATGGCTGgtatgcacca ... tttccttcagGTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCAT

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), 43 (downstream exon)
Score: 145

GTTTCTTGACACTGCTGGACTGAAGAAATCAAGTGCTTACTTGGTTAATGGAATTCTGATGTTTGTTGCATGGCTGgtatgcacca ... tttccttcagGTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCATTACAGTCAG


Block sizes: 49 (upstream exon), 37 (downstream exon)
Score: 56

GTTTCTTGACACTGCTGGACTGAAGAAATCAAGTGCTTACTTGGTTAATGGAATTCTGATGTTTGTTGCATGGCTGgtatgcacca ... tttccttcagGTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCATTACAGTCAG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 66

GTTTCTTGACACTGCTGGACTGAAGAAATCAAGTGCTTACTTGGTTAATGGAATTCTGATGTTTGTTGCATGGCTGgtatgcacca ... tttccttcagGTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCATTACAGTCAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 143

GTTTCTTGACACTGCTGGACTGAAGAAATCAAGTGCTTACTTGGTTAATGGAATTCTGATGTTTGTTGCATGGCTGgtatgcacca ... tttccttcagGTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCATTACAGTCAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcccctgatgttggtgctgctggcttatcatttcatttgttcatatttccttcagGTGGCAAGGATATTTTTGTTCATGTATGTATTTTACCACATTTATTTGCATTACAGTCAG
  ccctgat  putative branch site (score: 143)
                                       ttcatatttccttc  putative PPT
                        ttatcatttcattt  TA-rich tract