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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCCCTGCAACTCTCATTGCAGACTCAGCTGCAGCTGCACTGATGAAAGATGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATGgtacactcaaacaccttagataaatccgttttctctcacaaatctgattccttatgactgaatcacttcttaaccaattcattgatatactccag

Basic information

species Arabidopsis thaliana
transcript AT2G05830.3
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G05830.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv11s0016g00830.t01 (Vitis vinifera), 5'ss of exon 8
ATCCCTGCAACTCTCATTGCAGACTCAGCTGCAGCTGCACTGATGAAAGATGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATGgtacactcaaacaccttagataaatccgttttctctcacaaatctgattccttatgactgaatcacttcttaaccaattcattgatatactccag
|| ||||| ||||| || |||||||| |||||||||||| | ||| | | ||| || || |||| |||||| |||||||| ||||| || ||| ||||||||||       || |    |||  |  || |          || || ||  | ||  |   | ||    | |   |   |||  | ||| | |||
ATACCTGCTACTCTTATAGCAGACTCTGCTGCAGCTGCATTAATGCAGGCTGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagttcagc---aataggtttgtctc---------atttgttttttgataccaacagcatgcatgacagatcccatctaaata-tgcag
















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|125038551|gb|EL110820.1|EL110820
EST:     TGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATG                         GCGATACTGCTAACAAGATTGGGACTTACAG
genomic: TGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATGgtacactcaa ... tatactccagGCGATACTGCTAACAAGATTGGGACTTACAG
EST: gi|116380081|gb|EG422673.1|EG422673
EST:     TGGTCGTGTTGATGGTGTCATCGTTGAAGCTGATCGTGTGGCTTCAAATG                         GCGATACTGCTAACAAGATTGGGACTTACAGTCTCGCCTTGTGCGCAAAAC
genomic: TGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATGgtacactcaa ... tatactccagGCGATACTGCTAACAAGATTGGGACTTACAGTCTCGCCTTGTGCGCAAAAC
EST: gi|86080100|gb|DR375857.1|DR375857
EST:     TGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATG                         GCGATACTGCTAACAAGATTGGGACTTACAGTCTCGCCTTGTGCGCAAAAC
genomic: TGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATGgtacactcaa ... tatactccagGCGATACTGCTAACAAGATTGGGACTTACAGTCTCGCCTTGTGCGCAAAAC
EST: gi|116462299|gb|EG504891.1|EG504891
EST:     TGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATG                         GCGATACTGCTAACAAGATTGGGACTTACAGTCTCGCCTTGTGCGCAAAAC
genomic: TGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATGgtacactcaa ... tatactccagGCGATACTGCTAACAAGATTGGGACTTACAGTCTCGCCTTGTGCGCAAAAC
EST: gi|125104254|gb|EL158386.1|EL158386
EST:     ATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATG                         GCGATACTGCTAACAAGATTGGGACTTACAGTCTCGCCTTGTGCGCAAAAC
genomic: ATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATGgtacactcaa ... tatactccagGCGATACTGCTAACAAGATTGGGACTTACAGTCTCGCCTTGTGCGCAAAAC
EST: gi|116380079|gb|EG422671.1|EG422671
EST:     TGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATG                         GCGATACTGCTAACAAGATTGGGACTTACAGTCTCCCCTTGTGCGCAAAAC
genomic: TGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATGgtacactcaa ... tatactccagGCGATACTGCTAACAAGATTGGGACTTACAGTCTCGCCTTGTGCGCAAAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCCCTGCAACTCTCATTGCAGACTCAGCTGCAGCTGCACTGATGAAAGATGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATGgtacactcaaacaccttagataaatccgttttctctcacaaatctgattccttatgactgaatcacttcttaaccaattcattgatatactccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT