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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtacttcgatccttggctttgcttgcattggcctgtgcccagttactgccagcctaaacggacgaggtgttgttcctgggaaactctaacgcgcgccactgcattgccgttgtcgcgcag

Basic information

species Zea mays
transcript GRMZM2G114337_T01
intron # 10
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|149084284|gb|EE173717.2|EE173717
EST:     TCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|78544029|gb|DV621527.1|DV621527
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|211112077|gb|FL283002.1|FL283002
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|71762012|gb|DR959949.1|DR959949
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|20802912|gb|BQ293962.1|BQ293962
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|211093538|gb|FL437518.1|FL437518
EST:     TCCATTGATGAGAGCGTCCACGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|76284047|gb|DV023615.1|DV023615
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|60358070|gb|DN225043.1|DN225043
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|30306660|gb|CD001333.1|CD001333
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|20506952|gb|BQ279416.1|BQ279416
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|101389977|gb|EB816920.1|EB816920
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|26456599|gb|CA828182.1|CA828182
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|211112078|gb|FL283003.1|FL283003
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAAAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
EST: gi|20336928|gb|BQ172558.1|BQ172558
EST:     TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAG                         CATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC
genomic: TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGC

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: 47 (upstream exon), 48 (downstream exon)
Score: 132

TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGCTACCTGTTCGCGCGCAAGTTCTACCCCGAGGCGCTTGGCAACCTGATGA


Block sizes: 45 (upstream exon), 47 (downstream exon)
Score: 33

TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGCTACCTGTTCGCGCGCAAGTTCTACCCCGAGGCGCTTGGCAACCTGATGA


Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 86

TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGCTACCTGTTCGCGCGCAAGTTCTACCCCGAGGCGCTTGGCAACCTGATGA


Block sizes: 45 (upstream exon), 46 (downstream exon)
Score: 13

TCCATTGATGAGAGCGTCCATGTCAGCAGCAACGCGAAGgtaagagtac ... tgtcgcgcagCATGTAGCGCAGAGGAGGCCGTGCGTGTGGAACGGCATGAAGCGGCCCTGCTACCTGTTCGCGCGCAAGTTCTACCCCGAGGCGCTTGGCAACCTGATGA