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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaaaaacaaattctctaccgcatagattacttgttatgatccatcactcactgtctaggtttacttttttactttggttctctgattcactcattgttgttaacagATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGAAAGAAAGGAAAAGAGAAAAGAGATTATTCAAACCGGTTTGCGTTTGGTTATTTACCTATTT

Basic information

species Arabidopsis thaliana
transcript AT4G11150.1
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|125236162|gb|EL250247.1|EL250247
EST:     CACACTTGATGCGCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTG                         ATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGAAA
genomic: CACACTTGATGCGCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTGgtatgaaaaa ... ttgttaacagATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGAAA
EST: gi|164173107|gb|ES066670.1|ES066670
EST:     GCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTG                         ATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCC
genomic: GCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTGgtatgaaaaa ... ttgttaacagATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCC
EST: gi|164117797|gb|ES124630.1|ES124630
EST:     GAAACTCCCAGTG                         ATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGAAAGAAAGGAAAA
genomic: GAAACTCCCAGTGgtatgaaaaa ... ttgttaacagATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGAAAGAAAGGAAAA
EST: gi|124730895|gb|EH822297.1|EH822297
EST:     CGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTG                         ATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGAT
genomic: CGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTGgtatgaaaaa ... ttgttaacagATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGAT
EST: gi|124860564|gb|EH945001.1|EH945001
EST:     ACACACTTGATGCGCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTG                         ATCCGTAAGTCGTTGTTCGGCCAAGTTA
genomic: ACACACTTGATGCGCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTGgtatgaaaaa ... ttgttaacagATCCGTAAGTCGTTGTTCGGCCAAGTTA
EST: gi|163971523|gb|ES133029.1|ES133029
EST:     ACACACTTGATGCGCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTG                         ATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGAAAGAA
genomic: ACACACTTGATGCGCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTGgtatgaaaaa ... ttgttaacagATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGAAAGAA
EST: gi|125042597|gb|EL114866.1|EL114866
EST:     ACACACTTGATGCGCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTG                         ATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGA
genomic: ACACACTTGATGCGCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTGgtatgaaaaa ... ttgttaacagATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctaggtttacttttttactttggttctctgattcactcattgttgttaacagATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGAAAGAAAGGAAAAGAGAAAAGAGATTATTCAAACCGGTTTGCGTTTGGTTATTTACCTATTT
                            ctctgat  putative branch site (score: 4)
        tttacttttttacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgaaaaacaaattctctaccgcatagattacttgttatgatccatcactcactgtctaggtttacttttttactttggttctctgattcactcattgttgttaacagATCCGTAAGTCGTTGTTCGGCCAAGTTACTGCCTGATGAAAGAAAGGAAAAGAGAAAAGAGATTATTCAAACCGGTTTGCGTTTGGTTATTTACCTATTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA