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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctctcattttgctgatgctgaaccttacactctctatatttttgctttagactgtttgttttgttaatatatcaaatgtgctgaataaatagtatgtttttgaattgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAGTCGTTTCAACCTCATTATTTCTGCAAGAGGATGAATCTTTGTGGCAAAG

Basic information

species Arabidopsis thaliana
transcript AT3G51730.1
intron # 3
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|116444084|gb|EG486676.1|EG486676
EST:     AGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: AGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|301502451|gb|HO207991.1|HO207991
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|164005685|gb|ES003961.1|ES003961
EST:     TTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: TTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|301502227|gb|HO207767.1|HO207767
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|125110129|gb|EL162240.1|EL162240
EST:     ATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: ATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|116444575|gb|EG487167.1|EG487167
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|125216590|gb|EL230673.1|EL230673
EST:     CGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCCGCAGCAG                         TGCATAAGTTTGGTGGATTAC
genomic: CGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTC-GCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTAC
EST: gi|125205675|gb|EL220629.1|EL220629
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTT
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTT
EST: gi|301502141|gb|HO207681.1|HO207681
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|124968620|gb|EL042565.1|EL042565
EST:     GGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: GGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|152035681|gb|BP860832.2|BP860832
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTGGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|125031375|gb|EL103644.1|EL103644
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTA
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTA
EST: gi|86082778|gb|DR378537.1|DR378537
EST:     TGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTYCCTCTTTTCTTCTTACAACTAGAG
genomic: TGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|116443066|gb|EG485658.1|EG485658
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|124836648|gb|EH921087.1|EH921087
EST:     TGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATAAGTTCCTCTTTTCTTCTTACAACTAG
genomic: TGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTAT--GTTCCTCTTTTCTTCTTACAACTAG
EST: gi|301502871|gb|HO208411.1|HO208411
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|124773593|gb|EH863722.1|EH863722
EST:     CGGTGTTCCCAATTGCGCGGACATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAAACTAGA
genomic: CGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAA-CTAGA
EST: gi|124714326|gb|EH805728.1|EH805728
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTT
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTT
EST: gi|125152289|gb|EL184004.1|EL184004
EST:     GATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: GATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|47828635|gb|CK118319.1|CK118319
EST:     TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: TCGAAGATCTTCATGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|125085540|gb|EL145344.1|EL145344
EST:     TGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
genomic: TGATCGGTGTTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG
EST: gi|124880839|gb|EH959741.1|EH959741
EST:     TTCCCAATTGCGCGGATATTCGCAGCAG                         TGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTACTTACAACTAGAG
genomic: TTCCCAATTGCGCGGATATTCGCAGCAGgttctctcat ... attgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgttaatatatcaaatgtgctgaataaatagtatgtttttgaattgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAGTCGTTTCAACCTCATTATTTCTGCAAGAGGATGAATCTTTGTGGCAAAG
                         aataaatagtatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttctctcattttgctgatgctgaaccttacactctctatatttttgctttagactgtttgttttgttaatatatcaaatgtgctgaataaatagtatgtttttgaattgatgcagTGCATAAGTTTGGTGGATTACTATGTTCCTCTTTTCTTCTTACAACTAGAGTCGTTTCAACCTCATTATTTCTGCAAGAGGATGAATCTTTGTGGCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG