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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagacacttataaatattaatatgatttatgtagcagaaaggtgttgatatgaaactcataacatagaaaaatcacagATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTTCCAGCCTTACTTGGGTTTATAGTGCAGATGGTTGATTTTGG

Basic information

species Arabidopsis thaliana
transcript AT1G73020.1
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|116423752|gb|EG466344.1|EG466344
EST:     ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAG                         ATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTT
genomic: ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAGgtagacactt ... aaaatcacagATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTT
EST: gi|116436462|gb|EG479054.1|EG479054
EST:     ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAG                         ATTGGAGTCTACTTTTCGTTCT
genomic: ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAGgtagacactt ... aaaatcacagATTGGAGTCTACTTTTCGTTCT
EST: gi|116436358|gb|EG478950.1|EG478950
EST:     ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAG                         ATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATA
genomic: ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAGgtagacactt ... aaaatcacagATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATA
EST: gi|116436360|gb|EG478952.1|EG478952
EST:     ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAG                         ATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTT
genomic: ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAGgtagacactt ... aaaatcacagATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTT
EST: gi|116436397|gb|EG478989.1|EG478989
EST:     ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAG                         ATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTT
genomic: ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAGgtagacactt ... aaaatcacagATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTT
EST: gi|116435864|gb|EG478456.1|EG478456
EST:     ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAG                         ATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTT
genomic: ACTGCACAAACCAACCAATTGATCAGATCTACTCTTACTTTGGTGCAAAGgtagacactt ... aaaatcacagATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttatgtagcagaaaggtgttgatatgaaactcataacatagaaaaatcacagATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTTCCAGCCTTACTTGGGTTTATAGTGCAGATGGTTGATTTTGG
                                 tcataac  putative branch site (score: 2)
                                   ataacatagaaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagacacttataaatattaatatgatttatgtagcagaaaggtgttgatatgaaactcataacatagaaaaatcacagATTGGAGTCTACTTTTCGTTCTTGGGAATGTATACGCAATGGTTGATATTTCCAGCCTTACTTGGGTTTATAGTGCAGATGGTTGATTTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG