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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatattccctttgtgggtggagaaaacactaccagcttatgtactaactgcatgaaccattactag

Basic information

species Zea mays
transcript GRMZM2G143462_T06
intron # 3
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|211394218|gb|FL229512.1|FL229512
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|74242202|gb|DT650116.1|DT650116
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|148995692|gb|EE034914.2|EE034914
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211491201|gb|FK957022.1|FK957022
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCC-ACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|89759371|gb|DY688230.1|DY688230
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|30306905|gb|CD001578.1|CD001578
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211494075|gb|FK957027.1|FK957027
EST:     GGTAAAACATCTGGTTCAACTGGAACTTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACA
genomic: GGTAAAACATCTGGTTCAACTGGAACTT-CATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACA
EST: gi|211488314|gb|FK957004.1|FK957004
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211491197|gb|FK957018.1|FK957018
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCAC
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCAC
EST: gi|211491203|gb|FK957024.1|FK957024
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211491196|gb|FK957017.1|FK957017
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCCTCTAGAGGCCCCACA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCC-TCTAGAGGCCCCACA
EST: gi|148947026|gb|EC892323.2|EC892323
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211491191|gb|FK957012.1|FK957012
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACCTCCTGCAACAAGGCA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACAC-TCCTGCAACAAGGCA
EST: gi|89758471|gb|DY687642.1|DY687642
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211488319|gb|FK957009.1|FK957009
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGG
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGG
EST: gi|211488318|gb|FK957008.1|FK957008
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCA
EST: gi|89761592|gb|DY689541.1|DY689541
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211491193|gb|FK957014.1|FK957014
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCA
EST: gi|9731840|gb|BE510592.1|BE510592
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211491205|gb|FK957026.1|FK957026
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAG
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAG
EST: gi|211394220|gb|FL229514.1|FL229514
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211491192|gb|FK957013.1|FK957013
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCC
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCC
EST: gi|78111156|gb|DV529553.1|DV529553
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|148999208|gb|EE036127.2|EE036127
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211491194|gb|FK957015.1|FK957015
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|37423537|gb|CF649496.1|CF649496
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAG
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAG
EST: gi|93280956|gb|EB673220.1|EB673220
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|211488316|gb|FK957006.1|FK957006
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|149095756|gb|EE181396.2|EE181396
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|71771539|gb|DR969476.1|DR969476
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|32805412|gb|CD957648.1|CD957648
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
EST: gi|76912415|gb|DV164721.1|DV164721
EST:     GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAG                         CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA
genomic: GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAA

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: 39 (upstream exon), 49 (downstream exon)
Score: 284

GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC


Block sizes: 39 (upstream exon), 49 (downstream exon)
Score: 65

GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC


Block sizes: 39 (upstream exon), 49 (downstream exon)
Score: 87

GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC


Block sizes: 39 (upstream exon), 49 (downstream exon)
Score: 191

GGTAAAACATCTGGTTCAACTGGAACTTCATCTTCCCAGgtaaagatat ... ccattactagCACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC