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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttccttctacacttaaaacatttctctatgttacaaaacctttaacctcatagctgattttgttttgttatttctcttagATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAG

Basic information

species Arabidopsis thaliana
transcript AT4G17840.1
intron # 6
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|125022828|gb|EL095097.1|EL095097
EST:     CTGCTTCCCCTAAAG                         ATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACG
genomic: CTGCTTCCCCTAAAGgtttccttct ... tttctcttagATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACG
EST: gi|164190822|gb|ES052619.1|ES052619
EST:     TGGTTCTCTCTACTACATAGCTGCTTCCCCTAAAG                         ATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACG
genomic: TGGTTCTCTCTACTACATAGCTGCTTCCCCTAAAGgtttccttct ... tttctcttagATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACG
EST: gi|86080454|gb|DR376211.1|DR376211
EST:     TACAGCCGCTCTCACTGGTTCTCTCTACTACGTCGCTGCTTCCCCTAAAG                         ATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACG
genomic: TACAGCCGCTCTCACTGGTTCTCTCTACTACATAGCTGCTTCCCCTAAAGgtttccttct ... tttctcttagATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACG
EST: gi|116444842|gb|EG487434.1|EG487434
EST:     TACAGCCGCTCTCACCGGTTCTCTCTACTACATAGCTGCTTCCCCTAAAG                         ATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACG
genomic: TACAGCCGCTCTCACTGGTTCTCTCTACTACATAGCTGCTTCCCCTAAAGgtttccttct ... tttctcttagATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACG
EST: gi|125201764|gb|EL216718.1|EL216718
EST:     TACAGCCGCTCTCACTGGTTCTCTCTACTACATAGCTGCTTCCCCTAAAG                         ATACCAACTTATATAATGGCACCGGTCTTGAAAACT
genomic: TACAGCCGCTCTCACTGGTTCTCTCTACTACATAGCTGCTTCCCCTAAAGgtttccttct ... tttctcttagAT-CCAACTTATATAATGGCACCGGTCTTGAAAACT
EST: gi|116444840|gb|EG487432.1|EG487432
EST:     TACAGCCGCTCTCACCGGTTCTCTCTACTACATAGCTGCTTCCCCTAAAG                         ATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACG
genomic: TACAGCCGCTCTCACTGGTTCTCTCTACTACATAGCTGCTTCCCCTAAAGgtttccttct ... tttctcttagATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgttacaaaacctttaacctcatagctgattttgttttgttatttctcttagATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAG
                                ttttgttttgttattt  CT-rich tract
                               attttgttttgttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttccttctacacttaaaacatttctctatgttacaaaacctttaacctcatagctgattttgttttgttatttctcttagATCCAACTTATATAATGGCACCGGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT