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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCTCCCGTCTCAAGGGATAGCAGGGTGCAGCGGCTCGAAGCTGGAGGAAGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagcagtctctgtccgtcatttctcccgagtttgcatatgatgtgtttgtgtgctcgtcggtccgcgaattcgagcggagactggagaggtggga...

Basic information

species Zea mays
transcript GRMZM2G022859_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|71423683|gb|DR806127.1|DR806127
EST:     TCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: TCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292706|gb|FL181550.1|FL181550
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCATTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292704|gb|FL181548.1|FL181548
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGNCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|60345888|gb|DN212861.1|DN212861
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|88754530|gb|DY538671.1|DY538671
EST:     TCCAGTTGTCG                         TTCCCAGAAACTTTAGGGTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: TCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211187611|gb|FL186089.1|FL186089
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292702|gb|FL181546.1|FL181546
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|33100243|gb|CF060203.1|CF060203
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292709|gb|FL181553.1|FL181553
EST:     GCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTC-GGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: GCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292700|gb|FL181544.1|FL181544
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292707|gb|FL181551.1|FL181551
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|71423686|gb|DR806128.1|DR806128
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|13389074|gb|BG462543.1|BG462543
EST:     AGCGGACGGGTTCG-CATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211290575|gb|FL181543.1|FL181543
EST:     AGCGGACTGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCATTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|32797911|gb|CD950147.1|CD950147
EST:     GATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: GATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211187618|gb|FL186096.1|FL186096
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|76016546|gb|DT943716.1|DT943716
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292705|gb|FL181549.1|FL181549
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211290573|gb|FL181541.1|FL181541
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292703|gb|FL181547.1|FL181547
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292708|gb|FL181552.1|FL181552
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|16379365|gb|BI992896.1|BI992896
EST:     GGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: GGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292701|gb|FL181545.1|FL181545
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|76913969|gb|DV165351.1|DV165351
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|32800774|gb|CD953010.1|CD953010
EST:     GATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: GATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|60350937|gb|DN217910.1|DN217910
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|14242746|gb|BG840531.2|BG840531
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGTCT
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211185218|gb|FL186081.1|FL186081
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211185222|gb|FL186085.1|FL186085
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|60350383|gb|DN217356.1|DN217356
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
EST: gi|211292710|gb|FL181554.1|FL181554
EST:     AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCG                         TTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA
genomic: AGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCA

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: 48 (upstream exon), 49 (downstream exon)
Score: 359

CTCCTCCCGTCTCAAGGGATAGCAGGGTGCAGCGGCTCGAAGCTGGAGGAAGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGACGATGCTGATGACATATT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 285

CTCCTCCCGTCTCAAGGGATAGCAGGGTGCAGCGGCTCGAAGCTGGAGGAAGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGACGATGCTGATGACATATT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 174

CTCCTCCCGTCTCAAGGGATAGCAGGGTGCAGCGGCTCGAAGCTGGAGGAAGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGACGATGCTGATGACATATT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 251

CTCCTCCCGTCTCAAGGGATAGCAGGGTGCAGCGGCTCGAAGCTGGAGGAAGCGGACGGGTTCGCCATGGGGTCCGAGGGATCCTCGGGTCCAGTTGTCGgtgagtagca ... ttttctgcagTTCCCAGAAACTTTAGGCTGCTAGAAGAACTAGAACGTGGTGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGACGATGCTGATGACATATT