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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtctcatctttggtttggccttgtttatttcaataatttatctgtgtgttgaaaatctgaaaaaagtataactatatgaacaaattatttcaccaaacttttcgcctttaatatgatgagacgtttttgtatggtcagGAGGGTTTCTATGGCTATTGCAAGACTTTTGGCGTTAGCACTTGACTTGGATGTGGGATACTTTGATAGGACGGAGATGCTTGGAAAACCTATTGCAACT

Basic information

species Arabidopsis thaliana
transcript AT1G35190.1
intron # 4
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|86031355|gb|DR327108.1|DR327108
EST:     GTTTTACCTGGTTGGCGAGAAACAATGGAGAAATATCATCAAGAAGCATT                         GAGGGTT-CTATGGCTATTGCAAGACT
genomic: GTTTTACCTGGTTGGCGAGAAACAATGGAGAAATATCATCAAGAAGCATTgtgagtctca ... gtatggtcagGAGGGTTTCTATGGCTATTGCAAGACT
EST: gi|86031340|gb|DR327093.1|DR327093
EST:     GTTTTACCTGGTTGGCGAGAAACAATGGAGAAATATCATCAAGAAGCATT                         GAGGGTTTCTATGGCTATTGCAAG
genomic: GTTTTACCTGGTTGGCGAGAAACAATGGAGAAATATCATCAAGAAGCATTgtgagtctca ... gtatggtcagGAGGGTTTCTATGGCTATTGCAAG
EST: gi|86031341|gb|DR327094.1|DR327094
EST:     GTTTTACCTGGTTGGCGAGAAACAATGGAGAAATATCATCAAGAAGCATT                         GAGGGTTTCTATGGCTATT
genomic: GTTTTACCTGGTTGGCGAGAAACAATGGAGAAATATCATCAAGAAGCATTgtgagtctca ... gtatggtcagGAGGGTTTCTATGGCTATT
EST: gi|86031351|gb|DR327104.1|DR327104
EST:     GTTTTACCTGGTTGGCGAGAAACAATGGAGAAATATCATCAAGAAGCATT                         GAGGGTTTCTATGG
genomic: GTTTTACCTGGTTGGCGAGAAACAATGGAGAAATATCATCAAGAAGCATTgtgagtctca ... gtatggtcagGAGGGTTTCTATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attatttcaccaaacttttcgcctttaatatgatgagacgtttttgtatggtcagGAGGGTTTCTATGGCTATTGCAAGACTTTTGGCGTTAGCACTTGACTTGGATGTGGGATACTTTGATAGGACGGAGATGCTTGGAAAACCTATTGCAACT
                      ctttaat  putative branch site (score: 4)
                                        tttttgt  putative PPT
                       tttaatatgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtctcatctttggtttggccttgtttatttcaataatttatctgtgtgttgaaaatctgaaaaaagtataactatatgaacaaattatttcaccaaacttttcgcctttaatatgatgagacgtttttgtatggtcagGAGGGTTTCTATGGCTATTGCAAGACTTTTGGCGTTAGCACTTGACTTGGATGTGGGATACTTTGATAGGACGGAGATGCTTGGAAAACCTATTGCAACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG