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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgattatggatttgaccttttattgttgttgaatgattctgtattgagtgtcaactgtcaagccctctgattttgttttcttgctgcaaatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTCATTGCTGCTTCAAAAGGCTATAAACTTATCTTGACGATGCCTGCGTCCA

Basic information

species Arabidopsis thaliana
transcript AT2G43750.2
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|116392152|gb|EG434744.1|EG434744
EST:     ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
genomic: ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
EST: gi|125084079|gb|EL144424.1|EL144424
EST:     AAGAGAAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
genomic: AAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
EST: gi|86040118|gb|DR335873.1|DR335873
EST:     ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTACGAGT
genomic: ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGT
EST: gi|124935558|gb|EL012533.1|EL012533
EST:     ACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTAACGAGTGGGAACACAGGGATTGGCCTTGCATT
genomic: ACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCT-ACGAGTGGGAACACAGGGATTGGCCTTGCATT
EST: gi|125198639|gb|EL213593.1|EL213593
EST:     ATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAGAG                         AGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
genomic: ATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
EST: gi|86040112|gb|DR335867.1|DR335867
EST:     ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
genomic: ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
EST: gi|124806000|gb|EH893079.1|EH893079
EST:     ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAAT
genomic: ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAAT
EST: gi|86040141|gb|DR335896.1|DR335896
EST:     AGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGGAAAAG                         AGTGTTCTTGTGGGAATCTACGAGTGGGAAC
genomic: AGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGG-AAA-Ggtatttgatt ... aatgttttagAGTGTTCTTGTGG-AATCTACGAGTGGGAAC
EST: gi|86040122|gb|DR335877.1|DR335877
EST:     ACAGTATGATTACTGATGCTGNAGAGAAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTACGAGTGGGA-CACAGGGATTGGCCTTGCATTC
genomic: ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
EST: gi|86040133|gb|DR335888.1|DR335888
EST:     ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
genomic: ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
EST: gi|124881242|gb|EH960144.1|EH960144
EST:     GATGCTGAAGAGAAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
genomic: GATGCTGAAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
EST: gi|125306266|gb|EL320351.1|EL320351
EST:     ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGG
genomic: ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGG
EST: gi|125323462|gb|EL337544.1|EL337544
EST:     AAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
genomic: AAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTC
EST: gi|86040123|gb|DR335878.1|DR335878
EST:     ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAG                         AGTGTTCTTGTGGAATCTACGAGTGGGA-CACAG
genomic: ACAGTATGATTACTGATGCTGAAGAGAAAGGACTTATAACACCTGGAAAGgtatttgatt ... aatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgagtgtcaactgtcaagccctctgattttgttttcttgctgcaaatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTCATTGCTGCTTCAAAAGGCTATAAACTTATCTTGACGATGCCTGCGTCCA
                     ctctgat  putative branch site (score: 4)
                          attttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatttgattatggatttgaccttttattgttgttgaatgattctgtattgagtgtcaactgtcaagccctctgattttgttttcttgctgcaaatgttttagAGTGTTCTTGTGGAATCTACGAGTGGGAACACAGGGATTGGCCTTGCATTCATTGCTGCTTCAAAAGGCTATAAACTTATCTTGACGATGCCTGCGTCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT