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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGCCTTTAATTCCAGGTGACAGCAAGGGCAGGTCGACTGCGCTTGTTGCCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCGgtaatttcccatcgtttatctctgcatttatatgcatatttctgtattccatacattatttattcctcctctagcctagctacctgtctgaaacgctgtactgtgtgtcgcaattttgtcacatgtacacag

Basic information

species Zea mays
transcript GRMZM2G032619_T01
intron # 1
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|148958629|gb|EC904884.2|EC904884
EST:     CCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCG                         ATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATC
genomic: CCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCGgtaatttccc ... atgtacacagATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATC
EST: gi|149009507|gb|EE041497.2|EE041497
EST:     CCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCG                         ATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATC
genomic: CCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCGgtaatttccc ... atgtacacagATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATC
EST: gi|149009318|gb|EE041385.2|EE041385
EST:     CCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCG                         ATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATC
genomic: CCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCGgtaatttccc ... atgtacacagATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATC
EST: gi|149072770|gb|EE161013.2|EE161013
EST:     CCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCG                         ATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATC
genomic: CCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCGgtaatttccc ... atgtacacagATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATC
EST: gi|148954313|gb|EC899724.2|EC899724
EST:     CCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCG                         ATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATC
genomic: CCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCGgtaatttccc ... atgtacacagATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATC

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 3 RNA-Seq libraries.


Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 62

GTCGCCTTTAATTCCAGGTGACAGCAAGGGCAGGTCGACTGCGCTTGTTGCCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCGgtaatttccc ... atgtacacagATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATCCATCCATCCACCACCAGAGAAGAGCATACAGTAGTGCACCACTCATCTC


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 84

GTCGCCTTTAATTCCAGGTGACAGCAAGGGCAGGTCGACTGCGCTTGTTGCCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCGgtaatttccc ... atgtacacagATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATCCATCCATCCACCACCAGAGAAGAGCATACAGTAGTGCACCACTCATCTC


Block sizes: 26 (upstream exon), 47 (downstream exon)
Score: 6

GTCGCCTTTAATTCCAGGTGACAGCAAGGGCAGGTCGACTGCGCTTGTTGCCTACTGCTACTCCGATCGATACATACATACAGATTCCCTGCACCGGCCGgtaatttccc ... atgtacacagATCGCGATCAGAGATTGAGGAGGCATCCTGTCCAGCTGTTCCACTTCCATCCATCCATCCACCACCAGAGAAGAGCATACAGTAGTGCACCACTCATCTC