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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttgtgtagcagtttttttcacatttttatacctatgctcatacaaaaactaggaaaatgatcatctatgaaatgttgttattttaatcagttgctgatttggttattgtatttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGACACGTCTTCCGACGAAGAAGATGAAGAATCATGCGATGAGGAGGATGATG

Basic information

species Arabidopsis thaliana
transcript AT2G34100.2
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|116390997|gb|EG433589.1|EG433589
EST:     CGACGAATTATACCCCTATTTCCTACGATCATCGTAATGAAAAAGATAGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116375643|gb|EG418235.1|EG418235
EST:     CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGT                         GGTTCAAGTTTGACGTGGAGAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116375647|gb|EG418239.1|EG418239
EST:     CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAGGATAGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116390998|gb|EG433590.1|EG433590
EST:     CTACGATCATCGTAATGAAAAAGATAGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: CTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116375645|gb|EG418237.1|EG418237
EST:     GAATTATGCCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: GAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116375600|gb|EG418192.1|EG418192
EST:     AATGAAAAAGATAGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: AATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116375629|gb|EG418221.1|EG418221
EST:     CGACGATTTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATGGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116375644|gb|EG418236.1|EG418236
EST:     CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATGGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116375640|gb|EG418232.1|EG418232
EST:     TACCCCTAGTTCCTTCGATCATCGTAATGAAATGGATAGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCCGCAGTTATATAATGTTGAC
genomic: TACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116375646|gb|EG418238.1|EG418238
EST:     CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116375601|gb|EG418193.1|EG418193
EST:     CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116390996|gb|EG433588.1|EG433588
EST:     CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
genomic: CGACGAATTATACCCCTAGTTCCTACGATCATCGTAATGAAAAAGATAGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGAC
EST: gi|116386134|gb|EG428726.1|EG428726
EST:     AAAAAGATGAGT                         GGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGA
genomic: AAAAAGAT-AGTgtaagttttt ... ttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaaatgttgttattttaatcagttgctgatttggttattgtatttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGACACGTCTTCCGACGAAGAAGATGAAGAATCATGCGATGAGGAGGATGATG
                         tgctgat  putative branch site (score: 3)
     atgttgttattttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttttgtgtagcagtttttttcacatttttatacctatgctcatacaaaaactaggaaaatgatcatctatgaaatgttgttattttaatcagttgctgatttggttattgtatttgtgattagGGTTCAAGTTTGACGTGGAAAGGTGGTTATCAGCAGTTATATAATGTTGACACGTCTTCCGACGAAGAAGATGAAGAATCATGCGATGAGGAGGATGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG