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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgtagcattatattagctcttttacttgtttcgtctaaatcaatctagtttgatttttaacttctctcctaatggcctcttgtttcggtgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATATGGGGTTCCTCAACTTCTGCGAGTAACTCAAACACCATCAGACTGTCGA

Basic information

species Zea mays
transcript GRMZM2G149576_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149576_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os03g51650.1 (Oryza sativa), 3'ss of exon 11
gatgtagcattatattagctcttttacttgt-ttcgtctaaatcaat--ctagtttgatttttaacttctctcctaatggcctcttgtttcggtgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATATGGGGTTCCTCAACTTCTGCGAGTAACTCAAACACCATCAGACTGTCGA
 || |||| || |||  || | |    |||  ||  |||| ||  ||  ||    ||  | ||    ||     |  |  | | |  || |    |  ||||||||| ||||||||||||||||||||    ||||||||||| || || || |||||||||||| ||||||||||| |    | |  ||||||||||||| |
-at-tagcctt-tataggcccatcgctttgcctttatctatatgtatgtctgtactgcctgttcttctcagctttcctaacatttgtttcctcgtaaattcagGTGTTGTTGGAACCCAGAAGAGCATCAGCATGATCAACAACCATGAGTACATGGGGTTCCTCGACTTCTGCGAGAAGTGAAGAACCCATCAGACTGTCCA
















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|12047343|gb|BF729482.1|BF729482
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|78104607|gb|DV523025.1|DV523025
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|76917338|gb|DV166773.1|DV166773
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|71772905|gb|DR970828.1|DR970828
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|78082191|gb|DV510603.1|DV510603
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|37388342|gb|CF631379.1|CF631379
EST:     CGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: CGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|37388821|gb|CF631623.1|CF631623
EST:     TATNGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|76013548|gb|DT940718.1|DT940718
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|18171482|gb|BM341322.1|BM341322
EST:     A-TGNTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: ATTG-TCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|14244470|gb|BG842452.2|BG842452
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|78111898|gb|DV530295.1|DV530295
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|78088724|gb|DV517117.1|DV517117
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|78117851|gb|DV536238.1|DV536238
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|13198414|gb|BG354309.1|BG354309
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|13316011|gb|BG410458.1|BG410458
EST:     TATTGGCTTCATCCTCTCCTCTGNTATCTTTGTTTGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|94472463|gb|EB701421.1|EB701421
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|148945266|gb|EC890476.2|EC890476
EST:     GTCAGTGCTCTTACGATGG                         GGGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: GTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|78115007|gb|DV533395.1|DV533395
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|44900512|gb|CK827057.1|CK827057
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|211390817|gb|FL199661.1|FL199661
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|149099894|gb|EE185946.2|EE185946
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|88750877|gb|DY535018.1|DY535018
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|33099896|gb|CF059856.1|CF059856
EST:     TATTGTCTTCATCCTCTCTTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|71429318|gb|DR810368.1|DR810368
EST:     TATTGTCTTCATCCTCTCCTCTGTTATTTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|33099796|gb|CF059756.1|CF059756
EST:     TATTGTCTTCATCCTCTCTTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|91877727|gb|EB407684.1|EB407684
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAA-ATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|71769873|gb|DR967810.1|DR967810
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|78115006|gb|DV533394.1|DV533394
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|116820526|gb|EC863749.1|EC863749
EST:     TATTGCCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|211009898|gb|FL446472.1|FL446472
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|37387083|gb|CF630734.1|CF630734
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|93282424|gb|EB674688.1|EB674688
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|91052630|gb|EB163048.1|EB163048
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|71769067|gb|DR967004.1|DR967004
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|78179154|gb|DV549527.1|DV549527
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|149081527|gb|EE170663.2|EE170663
EST:     TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
EST: gi|37398769|gb|CF636702.1|CF636702
EST:     TATTGTCTTCATCCTCTCCTCTGTNATCTTCGTCAGTGCTCTTACGATGG                         GTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA
genomic: TATTGTCTTCATCCTCTCCTCTGTTATCTTCGTCAGTGCTCTTACGATGGgtatgaacct ... tgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctagtttgatttttaacttctctcctaatggcctcttgtttcggtgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATATGGGGTTCCTCAACTTCTGCGAGTAACTCAAACACCATCAGACTGTCGA
                       tcctaat  putative branch site (score: 2)
     tttgatttttaactt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatgtagcattatattagctcttttacttgtttcgtctaaatcaatctagtttgatttttaacttctctcctaatggcctcttgtttcggtgagtttcagGTGTCGTTGGAACCCAGAAGAGCATTTCGATGATCAACAATCACGAATATATGGGGTTCCTCAACTTCTGCGAGTAACTCAAACACCATCAGACTGTCGA

- tgtagca
- - - - - - - - - - - -ttacttg
- - - - - - - - - - - - - cttgttt