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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatcaaaatcattaccaacataatgaattggaggttttctttttagttcaatatataaacagaggatttgtcaatctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGTTTAGTTTGCAGATTGAGCTTTTATGGTAGACAAATTCGTAGCAGATAAT

Basic information

species Arabidopsis thaliana
transcript AT1G72970.1
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|86019339|gb|DR315085.1|DR315085
EST:     GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAG                         ATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
genomic: GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
EST: gi|86077602|gb|DR373359.1|DR373359
EST:     GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAG                         ATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
genomic: GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
EST: gi|164200737|gb|ES085650.1|ES085650
EST:     GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAG                         ATACATGGGAGTCAAGATTCTTCGGGAGAGACT
genomic: GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACT
EST: gi|125240026|gb|EL254111.1|EL254111
EST:     CCGCAAGCTACTATGATGATGATGGGAAG                         ATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAAGCTGGTG
genomic: CCGCAAGCTACTATGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAA-GCTGGTG
EST: gi|164105783|gb|ES043022.1|ES043022
EST:     GAACCAACCCGCAAGCTACTATGATGATGATGGGAAG                         ATACATGGGAGTCAAGATTCTTCGGGAGAGAC
genomic: GAACCAACCCGCAAGCTACTATGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGAC
EST: gi|164112209|gb|ES111217.1|ES111217
EST:     TGATGATGATGGGAAG                         ATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
genomic: TGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
EST: gi|86080504|gb|DR376261.1|DR376261
EST:     GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAG                         ATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
genomic: GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
EST: gi|116476797|gb|EG519389.1|EG519389
EST:     GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAG                         ATACATGGGAGTCAAGATTTTTCGGGAGAGACTTGGAAACAAAACTGGTGT
genomic: GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
EST: gi|86077156|gb|DR372913.1|DR372913
EST:     GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAG                         ATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
genomic: GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGT
EST: gi|164058032|gb|ES199149.1|ES199149
EST:     GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAG                         ATACATGGGAGTCAAGATT
genomic: GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAGATT
EST: gi|164191584|gb|ES036415.1|ES036415
EST:     GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAG                         ATACATGGGAGTCAAG
genomic: GACGAGTCTCCAGGAACCAACCCGCAAGCTACTATGATGATGATGGGAAGgtaaatcaaa ... atctttgcagATACATGGGAGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaggttttctttttagttcaatatataaacagaggatttgtcaatctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGTTTAGTTTGCAGATTGAGCTTTTATGGTAGACAAATTCGTAGCAGATAAT
                                              tctttgc  CT-rich tract
      ttttctttttagttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatcaaaatcattaccaacataatgaattggaggttttctttttagttcaatatataaacagaggatttgtcaatctttgcagATACATGGGAGTCAAGATTCTTCGGGAGAGACTTGGAAACAAAGCTGGTGTTTAGTTTGCAGATTGAGCTTTTATGGTAGACAAATTCGTAGCAGATAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT