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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTACTTTCAGTACTCCTTTTGCTCTAGCATCCATATTCTCAAGCTGCTCCGGTGCAGGCCAAGgtaaatatatacatctttaatattaaagttactaaagttacaaatatgtgggaccgtaactattatattttggtttcatccaccttatgcaattataacataggtatttaaattgtttttgtgatgttttgatttacag

Basic information

species Arabidopsis thaliana
transcript AT1G71880.1
intron # 2
splice site 5'
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|152034484|gb|BP830014.2|BP830014
EST:     TCCTTTTGCTCTAGCATCCATATTCTCAAGCTGGTCCGGTGCAGGCCAAG                         GACTTTCATTAGGAGTTTTAAATTTGGCGATTGTGATACCACAAATGATAG
genomic: TCCTTTTGCTCTAGCATCCATATTCTCAAGCTGCTCCGGTGCAGGCCAAGgtaaatatat ... tgatttacagGACTTTCATTAGGAGTTTTAAATTTGGCGATTGTGATACCACAAATGATAG
EST: gi|124723543|gb|EH814945.1|EH814945
EST:     TCCTTTTGCTCTAGCATCCATATTCTCAAGCTGCTCCGGTGCAGGCCAAG                         GACTTTCATTAGG
genomic: TCCTTTTGCTCTAGCATCCATATTCTCAAGCTGCTCCGGTGCAGGCCAAGgtaaatatat ... tgatttacagGACTTTCATTAGG
EST: gi|124769585|gb|EH859715.1|EH859715
EST:     CTCCGGTGCAGGCCAAG                         GACTTTCATTAGGAGTTTTTAAATTTGGCGATTGTGATACCACAAATGATA
genomic: CTCCGGTGCAGGCCAAGgtaaatatat ... tgatttacagGACTTTCATTAGGAG-TTTTAAATTTGGCGATTGTGATACCACAAATGATA
EST: gi|124883400|gb|EH962302.1|EH962302
EST:     CTGCTCCGGTGCAGGCCAAG                         GACTTTCATTAGGAGTTTTAAATTTGGCGATTGTGATACCACAAATGATAG
genomic: CTGCTCCGGTGCAGGCCAAGgtaaatatat ... tgatttacagGACTTTCATTAGGAGTTTTAAATTTGGCGATTGTGATACCACAAATGATAG
EST: gi|125267170|gb|EL281255.1|EL281255
EST:     TCCTTTTGCTCTAGCATCCATATTCTCAAGCTGCTCCGGTGCAGGCCAAG                         GACTTTCATTAGG
genomic: TCCTTTTGCTCTAGCATCCATATTCTCAAGCTGCTCCGGTGCAGGCCAAGgtaaatatat ... tgatttacagGACTTTCATTAGG
EST: gi|125261564|gb|EL275649.1|EL275649
EST:     CTCCGGTGCAGGCCAAG                         GACTTTCATTAGGAGTTTTAAATTTGGCGATTGTGATACCACAAATGATAG
genomic: CTCCGGTGCAGGCCAAGgtaaatatat ... tgatttacagGACTTTCATTAGGAGTTTTAAATTTGGCGATTGTGATACCACAAATGATAG
EST: gi|116475885|gb|EG518477.1|EG518477
EST:     TCCTTTTGCTCTAGCATCCATATTCTCAAGCTGCTCCGGTGCAGGCCAAG                         GACTTTCATTAGGAGTTTTAAATTTGGCGATTGTGATACCACAAATGATAG
genomic: TCCTTTTGCTCTAGCATCCATATTCTCAAGCTGCTCCGGTGCAGGCCAAGgtaaatatat ... tgatttacagGACTTTCATTAGGAGTTTTAAATTTGGCGATTGTGATACCACAAATGATAG
EST: gi|125205759|gb|EL220713.1|EL220713
EST:     GGTGCAGGCCAAG                         GACTTTCATTAGGAGTTTTAAATTTGGCGATTGTGATACCACAAATGATAG
genomic: GGTGCAGGCCAAGgtaaatatat ... tgatttacagGACTTTCATTAGGAGTTTTAAATTTGGCGATTGTGATACCACAAATGATAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTACTTTCAGTACTCCTTTTGCTCTAGCATCCATATTCTCAAGCTGCTCCGGTGCAGGCCAAGgtaaatatatacatctttaatattaaagttactaaagttacaaatatgtgggaccgtaactattatattttggtttcatccaccttatgcaattataacataggtatttaaattgtttttgtgatgttttgatttacag

- - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - -  GCTGCT