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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaaaatcataggttttgtttttctttactaatcatcacatcatcaatcaaaaccaaagatttgcatgagtttatgcacaacttacttaactaaaaccccctcccatttttgtagTTTGATGGCTTTATTGATCTCGAAGGGTATGATTCCATAGCCCTGAGGCTCAAAGGAGATGGAAGGTGCTATATTTCTACT

Basic information

species Arabidopsis thaliana
transcript AT1G72420.1
intron # 5
splice site 3'
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|116420282|gb|EG462874.1|EG462874
EST:     CAAAATGGAATATCAATCGGAGTGGTTTCTGTGGAATGCGGTCAAAGAAG                         TTTGATGGCTTTATTGATCTCGAAGGGTATGATTCCATAGCCCTGAGGCTC
genomic: CAAAATGGAATATCAATCGGAGTGGTTTCTGTGGAATGCGGTCAAAGAAGgttaaaatca ... atttttgtagTTTGATGGCTTTATTGATCTCGAAGGGTATGATTCCATAGCCCTGAGGCTC
EST: gi|86065274|gb|DR361031.1|DR361031
EST:     CAAAATGGAATATCAATCGGAGTGGTTTCTGTGGAATGCGGTCAAAGAAG                         TTTTATGGCTTTATTGATCTCGAAGGGTATGATTCCATAGCCCTGAGGCTC
genomic: CAAAATGGAATATCAATCGGAGTGGTTTCTGTGGAATGCGGTCAAAGAAGgttaaaatca ... atttttgtagTTTGATGGCTTTATTGATCTCGAAGGGTATGATTCCATAGCCCTGAGGCTC
EST: gi|152038463|gb|AV823677.2|AV823677
EST:     CAAAATGGAATATCAATCGGAGTGGTTTCTGTGGAATGCGGTCAAAGAAG                         TTTGATGGCTTTATTGATCTCGAAGGGTATGATTCCATAGCCCTGAGGCTC
genomic: CAAAATGGAATATCAATCGGAGTGGTTTCTGTGGAATGCGGTCAAAGAAGgttaaaatca ... atttttgtagTTTGATGGCTTTATTGATCTCGAAGGGTATGATTCCATAGCCCTGAGGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgcatgagtttatgcacaacttacttaactaaaaccccctcccatttttgtagTTTGATGGCTTTATTGATCTCGAAGGGTATGATTCCATAGCCCTGAGGCTCAAAGGAGATGGAAGGTGCTATATTTCTACT
                            aactaaa  putative branch site (score: 2)
                                    ccccctcccatttttg  CT-rich tract
                      ttacttaactaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaaaatcataggttttgtttttctttactaatcatcacatcatcaatcaaaaccaaagatttgcatgagtttatgcacaacttacttaactaaaaccccctcccatttttgtagTTTGATGGCTTTATTGATCTCGAAGGGTATGATTCCATAGCCCTGAGGCTCAAAGGAGATGGAAGGTGCTATATTTCTACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG