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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtctgggttctttggaatgctattttaagatttgggtttcataaaagtgtcaaactttttagtctaatcaccattggattgttgtttttgttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAGTCTTGCTGCT

Basic information

species Arabidopsis thaliana
transcript AT2G34470.1
intron # 2
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|86021191|gb|DR316937.1|DR316937
EST:     TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
genomic: TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
EST: gi|86021192|gb|DR316938.1|DR316938
EST:     TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
genomic: TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
EST: gi|86021187|gb|DR316933.1|DR316933
EST:     TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
genomic: TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
EST: gi|19879192|gb|AU240023.1|AU240023
EST:     TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
genomic: TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
EST: gi|164127172|gb|ES186490.1|ES186490
EST:     GTCGGTATTGGCGGTCCCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAA
genomic: GTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATA-
EST: gi|86021186|gb|DR316932.1|DR316932
EST:     TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGSTCTTTGTAGATTCTTGAGGGACAAATATAG
genomic: TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
EST: gi|86021188|gb|DR316934.1|DR316934
EST:     TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
genomic: TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
EST: gi|86021185|gb|DR316931.1|DR316931
EST:     TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
genomic: TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
EST: gi|125219198|gb|EL233283.1|EL233283
EST:     ACCGTCGGTATTGGCGGTCCCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
genomic: ACCGTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
EST: gi|164026174|gb|ES162423.1|ES162423
EST:     TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATA
genomic: TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATA
EST: gi|86021189|gb|DR316935.1|DR316935
EST:     TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCSCGTTGGCACTGG                         GAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG
genomic: TTCTCTGAGAGAGCTTTTACCGTCGGTATTGGCGGTCCCGTTGGCACTGGgtaatcattt ... gttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtgtcaaactttttagtctaatcaccattggattgttgtttttgttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAGTCTTGCTGCT
                                            tgttgac  putative branch site (score: 3)
                                        tttttgtt  CT-rich tract
       aaacttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtctgggttctttggaatgctattttaagatttgggtttcataaaagtgtcaaactttttagtctaatcaccattggattgttgtttttgttgactcagGAAAACGGCATTGATGCTTGCTCTTTGTAGATTCTTGAGGGACAAATATAGTCTTGCTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT