Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAACTACTTCAGAGTACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcccgtgaaggaaagaaaaacacatatggcgtagtatctactttgattatatctctacattgttgtttcgtgcag

Basic information

species Arabidopsis thaliana
transcript AT4G37930.1
intron # 11
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|116411252|gb|EG453844.1|EG453844
EST:     CAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: CAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|124843077|gb|EH927514.1|EH927514
EST:     ACAAAGCATACCAAGAGCAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGG
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGG
EST: gi|125209026|gb|EL223980.1|EL223980
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTT
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTT
EST: gi|86059292|gb|DR355049.1|DR355049
EST:     CAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: CAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|124903205|gb|EH977285.1|EH977285
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGG
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGG
EST: gi|125311644|gb|EL325729.1|EL325729
EST:     CAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTG
genomic: CAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTG
EST: gi|125164170|gb|EL190867.1|EL190867
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         GCTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAA
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAA
EST: gi|125279158|gb|EL293243.1|EL293243
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCT
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCT
EST: gi|152034927|gb|BP840236.2|BP840236
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|125314060|gb|EL328145.1|EL328145
EST:     CAGTGCAAAGTTTGCTCAG                         ACTCT-ATGGAGAGAGGATATGAACTTGTTTCTG
genomic: CAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTG
EST: gi|124760392|gb|EH850522.1|EH850522
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAG
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAG
EST: gi|116443767|gb|EG486359.1|EG486359
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|125162386|gb|EL189156.1|EL189156
EST:     CAGTGCAAAGTTTGCTCAG                         ACTNTAATGGAGAGAGGATATGAACTTGTTTCTG
genomic: CAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTG
EST: gi|116484717|gb|EG527309.1|EG527309
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|125283169|gb|EL297254.1|EL297254
EST:     TAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: TAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|125205208|gb|EL220162.1|EL220162
EST:     TAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: TAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|125278894|gb|EL292979.1|EL292979
EST:     AACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: AACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|86079465|gb|DR375222.1|DR375222
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|124851541|gb|EH935978.1|EH935978
EST:     CAGTGCAAAGTTTGCTCAAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTG
genomic: CAGTGCAAAGTTTGCTC-AGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTG
EST: gi|125249132|gb|EL263217.1|EL263217
EST:     AACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: AACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|116484716|gb|EG527308.1|EG527308
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|116484726|gb|EG527318.1|EG527318
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
EST: gi|116484725|gb|EG527317.1|EG527317
EST:     ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAG                         ACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT
genomic: ACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcc ... tttcgtgcagACTCTAATGGAGAGAGGATATGAACTTGTTTCTGGTGGAACTGACAACCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCAACTACTTCAGAGTACAAAGCATACCAAGAACAAGTCCTGAGTAACAGTGCAAAGTTTGCTCAGgtactaatcccgtgaaggaaagaaaaacacatatggcgtagtatctactttgattatatctctacattgttgtttcgtgcag

- - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG