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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactcaatgaccgatgtgtaattctcacttcccagtgaaatcatcaaatatatatcagtttctcatattaccgtgtttcaattgttgcagAGGTTGCTGGCGAAATATGGATCACTCGTCTCCGTGATCTCCATGGTGGTTTGTTTCATATACTTGGTGGCAACACCTAAGTCCAACGTATCAAAGGCAA

Basic information

species Arabidopsis thaliana
transcript AT5G14030.1
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|124752456|gb|EH842586.1|EH842586
EST:     AAACCTTTGGACGTGGCCAAG
genomic: AAACCTTTGGACGTGGCCAAG
EST: gi|125234229|gb|EL248314.1|EL248314
EST:     AAACCTTTGGACGTGGCCAAG
genomic: AAACCTTTGGACGTGGCCAAG
EST: gi|86022138|gb|DR317891.1|DR317891
EST:     AGGAGGTATTCTGTCTCATTCTATCGAATTGGAGGCCAAGGTTAAAGGAGTCTTCTACGGTGCTCCTGCTGTCGTTACTTTCCGCATCCCCACTAAGCCAGCTCTTCAG
genomic: AGGAGGTATTCTGTCTCATTCTATCGAATTGGAGGCCAAGGTTAAAGGAGTCTTCTACGGTGCTCCTGCTGTCGTTACTTTCCGCATCCCCACTAAGCCAGCTCTTCAG
EST: gi|86022144|gb|DR317897.1|DR317897
EST:     AGGAGGTATTCTGTCTCATTCTATCGAATTGGAGGCCAAGGTTAAAGGAGTCTTCTACGGTGCTCCTGCTGTCGTTACTTTCCGCATCCCCACTAAGCCAGCTCTTCAG
genomic: AGGAGGTATTCTGTCTCATTCTATCGAATTGGAGGCCAAGGTTAAAGGAGTCTTCTACGGTGCTCCTGCTGTCGTTACTTTCCGCATCCCCACTAAGCCAGCTCTTCAG
EST: gi|164236015|gb|ES059156.1|ES059156
EST:     AAACCTTTGGACGTGGCCAAG
genomic: AAACCTTTGGACGTGGCCAAG
EST: gi|116399793|gb|EG442385.1|EG442385
EST:     AGGAGGTATTCTGTCTCATTCTATCGAATGGGAGGCCAAGGTTAAAGGAGTCTTCTACGGTGCTCCTGCTGTCGTTACTTTCCGCATCCCCACTAAGCCAGCTCTTCAG
genomic: AGGAGGTATTCTGTCTCATTCTATCGAATTGGAGGCCAAGGTTAAAGGAGTCTTCTACGGTGCTCCTGCTGTCGTTACTTTCCGCATCCCCACTAAGCCAGCTCTTCAG
EST: gi|164048468|gb|ES140634.1|ES140634
EST:     AACCTTTGGACGTGGCCAAG
genomic: AACCTTTGGACGTGGCCAAG
EST: gi|86076778|gb|DR372535.1|DR372535
EST:     AGGAGGTATTCTGTCTCATTCTATCGAATTGGAGGCCAAGGTTAAAGGAGTCTTCTACGGTGCTCCTGCTGTCGTTACTTTCCGCATCCCCACTAAGCCAGCTCTTCAG
genomic: AGGAGGTATTCTGTCTCATTCTATCGAATTGGAGGCCAAGGTTAAAGGAGTCTTCTACGGTGCTCCTGCTGTCGTTACTTTCCGCATCCCCACTAAGCCAGCTCTTCAG
EST: gi|116399796|gb|EG442388.1|EG442388
EST:     AGGAGGTATTCTGTCTCATTCTATCGAATTGGAGGCCAAGGTTAAAGGAGTCTTCTACGGTGCTCCTGCTGTCGTTACTTTCCGCATCCCCACTAAGCCAGCTCTTCAG
genomic: AGGAGGTATTCTGTCTCATTCTATCGAATTGGAGGCCAAGGTTAAAGGAGTCTTCTACGGTGCTCCTGCTGTCGTTACTTTCCGCATCCCCACTAAGCCAGCTCTTCAG
EST: gi|125133448|gb|EL174920.1|EL174920
EST:     AAACCTTTGGACGTGGCCAAG
genomic: AAACCTTTGGACGTGGCCAAG
EST: gi|124926281|gb|EL004153.1|EL004153
EST:     ACGTGGCCAAG
genomic: ACGTGGCCAAG
EST: gi|124759017|gb|EH849147.1|EH849147
EST:     CCTTTGGACGTGGCCAAG
genomic: CCTTTGGACGTGGCCAAG
EST: gi|124927602|gb|EL005326.1|EL005326
EST:     AAACCTTTGGACGTGGCCAAG
genomic: AAACCTTTGGACGTGGCCAAG
EST: gi|124746719|gb|EH837031.1|EH837031
EST:     CTTTGGACGTGGCCAAG
genomic: CTTTGGACGTGGCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaatcatcaaatatatatcagtttctcatattaccgtgtttcaattgttgcagAGGTTGCTGGCGAAATATGGATCACTCGTCTCCGTGATCTCCATGGTGGTTTGTTTCATATACTTGGTGGCAACACCTAAGTCCAACGTATCAAAGGCAA
          aaatatatatcagttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactcaatgaccgatgtgtaattctcacttcccagtgaaatcatcaaatatatatcagtttctcatattaccgtgtttcaattgttgcagAGGTTGCTGGCGAAATATGGATCACTCGTCTCCGTGATCTCCATGGTGGTTTGTTTCATATACTTGGTGGCAACACCTAAGTCCAACGTATCAAAGGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG