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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGCGGAGCTTCAGGCAGCCTCGTCATCGGACAGCAAATCTTTTGATCCCGTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaatattgtgcttttaatttttgttatagttaacatacatccactataataacataaaatcaagtcatcatttgaaacttaatgatatatattataatttctttgcag

Basic information

species Arabidopsis thaliana
transcript AT5G14740.4
intron # 4
splice site 5'
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|125312347|gb|EL326432.1|EL326432
EST:     GAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCG
genomic: GAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCG
EST: gi|125297531|gb|EL311616.1|EL311616
EST:     AGGCTTCGTCACCTTCAAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAG
genomic: AGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAG
EST: gi|125160645|gb|EL188140.1|EL188140
EST:     TAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAA
genomic: TAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAA
EST: gi|124880599|gb|EH959501.1|EH959501
EST:     TAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCGAAGGT
genomic: TAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGT
EST: gi|124893001|gb|EH971903.1|EH971903
EST:     TCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGTAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAA
genomic: TCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGG-AGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAA
EST: gi|152035748|gb|BP855522.2|BP855522
EST:     GTCGAACGAATTAAGGAAGGCT-CGTCACCTTCAAGAAGGAGAAATACGA                         GAACAATC-TGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAGCCCAAAGTA
genomic: GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAGCCCAAAGTA
EST: gi|124768189|gb|EH858319.1|EH858319
EST:     GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAGCCCAAAGTA
genomic: GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAGCCCAAAGTA
EST: gi|152035330|gb|BP850738.2|BP850738
EST:     GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGGCAAAGGTCAAAGCCCAAAG
genomic: GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAGCCCAAAG
EST: gi|47828530|gb|CK118214.1|CK118214
EST:     GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAGCCCAAAG
genomic: GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAGCCCAAAG
EST: gi|125135898|gb|EL175968.1|EL175968
EST:     AAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAAGGTCAAAGCCCAAAGT
genomic: AAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAA-GGTCAAAGCCCAAAGT
EST: gi|124705878|gb|EH797280.1|EH797280
EST:     ACCTTCAAGAAGGAAGAAATACCGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAGCCCAAAG
genomic: ACCTTCAAGAAGG-AGAAATA-CGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAAGCCCAAAG
EST: gi|124888933|gb|EH967835.1|EH967835
EST:     TCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGTAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAA
genomic: TCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGG-AGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAA
EST: gi|124818761|gb|EH903627.1|EH903627
EST:     TAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGT
genomic: TAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGT
EST: gi|125266571|gb|EL280656.1|EL280656
EST:     GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGG
genomic: GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGG
EST: gi|125018444|gb|EL090713.1|EL090713
EST:     GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAA
genomic: GTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAAGGTCAAA
EST: gi|124713005|gb|EH804407.1|EH804407
EST:     TCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGTAGAAATACGA                         GACCAATCCTGCTTTGTATGGTGAGCTCGCCAAA
genomic: TCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGG-AGAAATACGAgtaatataaa ... ttctttgcagGACCAATCCTGCTTTGTATGGTGAGCTCGCCAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGGCGGAGCTTCAGGCAGCCTCGTCATCGGACAGCAAATCTTTTGATCCCGTCGAACGAATTAAGGAAGGCTTCGTCACCTTCAAGAAGGAGAAATACGAgtaatataaatattgtgcttttaatttttgttatagttaacatacatccactataataacataaaatcaagtcatcatttgaaacttaatgatatatattataatttctttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA