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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGAAGCTGAGTACGAAGAAGATGTTGAAGAAGAGTCAGAGGAGGAATCTGAAGAAGAATCCGAAGATGAAGCTGATgtgagtgaaaacttctgcattgtatgcggcctcatctattatcattgttggacaattcatctttacttggtttataatatcag

Basic information

species Arabidopsis thaliana
transcript AT5G46020.1
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|164099139|gb|ES181825.1|ES181825
EST:     AGGAGGAGTCTGAAGAAGAATCCGAAGATGAAGCTGAT                         GTGAAGAAGAAAGGAGCTGAAGCTGTTA
genomic: AGGAGGAATCTGAAGAAGAATCCGAAGATGAAGCTGATgtgagtgaaa ... ataatatcagGTGAAGAAGAAAGGAGCTGAAGCTGTTA
EST: gi|124913491|gb|EH987365.1|EH987365
EST:     AATCTGAAGAAGAATCCGAAGATGAAGCTGAT                         GTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTAGATAACCCTAACAG
genomic: AATCTGAAGAAGAATCCGAAGATGAAGCTGATgtgagtgaaa ... ataatatcagGTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTT-GATAACCCTAACAG
EST: gi|164049841|gb|ES144224.1|ES144224
EST:     GGAGGAGTCTGAAGAAGAATCCGAAGATGAAGCTGAT                         GTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACCCTAACAAA
genomic: GGAGGAATCTGAAGAAGAATCCGAAGATGAAGCTGATgtgagtgaaa ... ataatatcagGTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACCCTAACAGA
EST: gi|163990093|gb|ES195749.1|ES195749
EST:     CCGAAGATGAAGCTGAT                         GTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACC-TAACAGA
genomic: CCGAAGATGAAGCTGATgtgagtgaaa ... ataatatcagGTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACCCTAACAGA
EST: gi|125134714|gb|EL175440.1|EL175440
EST:     AGGAATCTGAAGAAGAATCCGAAGATGAAGCTGAT                         GTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAGCCCTAACAGA
genomic: AGGAATCTGAAGAAGAATCCGAAGATGAAGCTGATgtgagtgaaa ... ataatatcagGTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACCCTAACAGA
EST: gi|164060665|gb|ES037396.1|ES037396
EST:     CGAAGATGAAGCTGAT                         GTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACCCTAACAGA
genomic: CGAAGATGAAGCTGATgtgagtgaaa ... ataatatcagGTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACCCTAACAGA
EST: gi|125064374|gb|EL132020.1|EL132020
EST:     TCTGAAGAAGAATCCGAAGATGAAGCTGAT                         GTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACCCTAACAGA
genomic: TCTGAAGAAGAATCCGAAGATGAAGCTGATgtgagtgaaa ... ataatatcagGTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACCCTAACAGA
EST: gi|164058602|gb|ES153113.1|ES153113
EST:     CCGAAGATGAAGCTGAT                         GTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACCCTAACAGA
genomic: CCGAAGATGAAGCTGATgtgagtgaaa ... ataatatcagGTGAAGAAGAAAGGAGCTGAAGCTGTTATCGAAGTTGATAACCCTAACAGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGAAGCTGAGTACGAAGAAGATGTTGAAGAAGAGTCAGAGGAGGAATCTGAAGAAGAATCCGAAGATGAAGCTGATgtgagtgaaaacttctgcattgtatgcggcctcatctattatcattgttggacaattcatctttacttggtttataatatcag

- - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT