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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttatcttctttttttgtctgtttccctcttgggttagacttcatgttgccttataacttgacatgatctgcagacaggactgcacaagtacttagctaaccgttttgtattattgttctctagGAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTTAGAGAGAACTGGAAGATTGTAAGATGGGTAGCTCTAGGAGCAGTTGTTT

Basic information

species Arabidopsis thaliana
transcript AT1G32400.2
intron # 4
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|164169819|gb|EL990234.1|EL990234
EST:     TCGACAACAGCTGGAGAGAT                         GAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTT
genomic: TCGATAACAGCTGGAGAGATgtgagttatc ... tgttctctagGAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTT
EST: gi|116422549|gb|EG465141.1|EG465141
EST:     TGGAGCTTGGATTCCCAGCATTTATTTTCTTCGATAACAGCTGGAGAGAT                         GAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTT
genomic: TGGAGCTTGGATTCGCAGCATTTATTTTCTTCGATAACAGCTGGAGAGATgtgagttatc ... tgttctctagGAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTT
EST: gi|124935113|gb|EL012125.1|EL012125
EST:     TCGCAGCATTTATTTTCTTCGATAACAGCTGGAGAGAT                         GAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTT
genomic: TCGCAGCATTTATTTTCTTCGATAACAGCTGGAGAGATgtgagttatc ... tgttctctagGAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTT
EST: gi|116457758|gb|EG500350.1|EG500350
EST:     TGGAGCTTGGATTCGCAGCATTTATTTTCTTCGATAACAGCTGGAGAGAT                         GAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTT
genomic: TGGAGCTTGGATTCGCAGCATTTATTTTCTTCGATAACAGCTGGAGAGATgtgagttatc ... tgttctctagGAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTT
EST: gi|125167021|gb|EL192535.1|EL192535
EST:     GGAGGCTTGGATTCGCAGCATTTATTTTCTTCGATAACAGCTGGAGAGAT                         GAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATA
genomic: GGA-GCTTGGATTCGCAGCATTTATTTTCTTCGATAACAGCTGGAGAGATgtgagttatc ... tgttctctagGAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATA
EST: gi|124704239|gb|EH795641.1|EH795641
EST:     TGGATTCGCAGCATTTATTTTCTTCGATAACAGCTGGAGAGAT                         GAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATAT
genomic: TGGATTCGCAGCATTTATTTTCTTCGATAACAGCTGGAGAGATgtgagttatc ... tgttctctagGAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATAT
EST: gi|116422550|gb|EG465142.1|EG465142
EST:     TGGAGCTTGGATTCCCAGCATTTATTTTCTTCGATAACAGCTGGAGAGAT                         GAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTT
genomic: TGGAGCTTGGATTCGCAGCATTTATTTTCTTCGATAACAGCTGGAGAGATgtgagttatc ... tgttctctagGAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcagacaggactgcacaagtacttagctaaccgttttgtattattgttctctagGAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTTAGAGAGAACTGGAAGATTGTAAGATGGGTAGCTCTAGGAGCAGTTGTTT
                         agctaac  putative branch site (score: 2)
                                            ttgttctct  putative PPT
                                  ttttgtattattgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttatcttctttttttgtctgtttccctcttgggttagacttcatgttgccttataacttgacatgatctgcagacaggactgcacaagtacttagctaaccgttttgtattattgttctctagGAACTTCCTTCTGACAGGACTGGAAACTTCGATACGATATATAATTTCCTTAGAGAGAACTGGAAGATTGTAAGATGGGTAGCTCTAGGAGCAGTTGTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG