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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCTTCTCCAACTTCCTGCCCATCTTAGGCGCCGTGCTCGCCGACGCCCGCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcacccacgccgccaactccctcggctccacgatgcaggcaattgattcaaccgccgtgctaatctgcgtgtctctcctgatcag

Basic information

species Zea mays
transcript GRMZM2G035790_T01
intron # 2
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|149071140|gb|EE159538.2|EE159538
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211539680|gb|FL070739.1|FL070739
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211533673|gb|FL070722.1|FL070722
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGGACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211536680|gb|FL070733.1|FL070733
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211536681|gb|FL070734.1|FL070734
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGNCGATCTTTCCGGTGTANCA-GAACAC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTA-CAAGAACAC
EST: gi|148968167|gb|EE019456.2|EE019456
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|148931856|gb|EC877314.2|EC877314
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211533666|gb|FL070715.1|FL070715
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211533667|gb|FL070716.1|FL070716
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211536679|gb|FL070732.1|FL070732
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTA-AAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211536673|gb|FL070726.1|FL070726
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211536675|gb|FL070728.1|FL070728
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211530666|gb|FL070708.1|FL070708
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|149078326|gb|EE167093.2|EE167093
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211530661|gb|FL070703.1|FL070703
EST:     GCCTCGGCCGNNTCCGGGNCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGATG-ACAAAAACAC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGG-TGTACAAGAACAC
EST: gi|211527668|gb|FL070695.1|FL070695
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211530656|gb|FL070698.1|FL070698
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211536682|gb|FL070735.1|FL070735
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211530657|gb|FL070699.1|FL070699
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCNGATCCTTCCGGTGTACAAGAACAC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGC-GATCCTTCCGGTGTACAAGAACAC
EST: gi|211530664|gb|FL070706.1|FL070706
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211536684|gb|FL070737.1|FL070737
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211536683|gb|FL070736.1|FL070736
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|149011546|gb|EE042369.2|EE042369
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211530659|gb|FL070701.1|FL070701
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|149008814|gb|EE041018.2|EE041018
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
EST: gi|211536676|gb|FL070729.1|FL070729
EST:     GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTC                         GGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC
genomic: GCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACC

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 2 RNA-Seq libraries.


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 2

TGCCTTCTCCAACTTCCTGCCCATCTTAGGCGCCGTGCTCGCCGACGCCCGCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACCCCGGAGTGCGCGCCGGGGCGGCCGGTAGGGTGCGCGGTGCTGCCGTGGC


Block sizes: 38 (upstream exon), 45 (downstream exon)
Score: 11

TGCCTTCTCCAACTTCCTGCCCATCTTAGGCGCCGTGCTCGCCGACGCCCGCCTCGGCCGGTTCCGGGTCATCACCCTCGGCTCCTGCGTTAGCCTCTTCgtgagcaccc ... tcctgatcagGGGATGTGCCTGCTGTGGCTGACGGCGATCCTTCCGGTGTACAAGAACACCCCGGAGTGCGCGCCGGGGCGGCCGGTAGGGTGCGCGGTGCTGCCGTGGC




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