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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtatttgttttgtgagctcttcctcagattctaataggtagaagattgatcatgcatacatctttctcgtttaacaattttcctgctgatgaagtgtcagttaagtgtctgtagtttttccagtcagtataacttcaagatctatgaaaataatttgattgttcataactgtgttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATCTGAGGGAGAAG

Basic information

species Arabidopsis thaliana
transcript AT5G11500.2
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|86045057|gb|DR340812.1|DR340812
EST:     AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC
genomic: AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC
EST: gi|86045138|gb|DR340893.1|DR340893
EST:     AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGGAACAACATC
genomic: AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC
EST: gi|86045092|gb|DR340847.1|DR340847
EST:     AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC
genomic: AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC
EST: gi|86045107|gb|DR340862.1|DR340862
EST:     AGTTAACAGACTGAACAAAACAAAAGTTGGAAGAACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCAAAAAGGGCAGAGAGGGAAACA-CAT
genomic: AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGG-AAACAACAT
EST: gi|86045106|gb|DR340861.1|DR340861
EST:     AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC
genomic: AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC
EST: gi|125001308|gb|EL073577.1|EL073577
EST:     GACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGG
genomic: GACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGG
EST: gi|125149808|gb|EL182778.1|EL182778
EST:     AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAG                         CCAAGAGAGAAGCAGTGAATGCCGCAGAAAGG-CAGAGAGGAAA
genomic: AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAA
EST: gi|164038540|gb|ES199601.1|ES199601
EST:     AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCA
genomic: AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCA
EST: gi|86045110|gb|DR340865.1|DR340865
EST:     AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC
genomic: AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC
EST: gi|86045056|gb|DR340811.1|DR340811
EST:     AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGG
genomic: AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGG
EST: gi|86045059|gb|DR340814.1|DR340814
EST:     GTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAAG                         C-GAGAGAGAAGCAGTGAATGCCGCCCAAAGGGAAGAGAGGAA
genomic: GTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGA-Ggttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAA
EST: gi|124720285|gb|EH811687.1|EH811687
EST:     ACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAA
genomic: ACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAA
EST: gi|86045093|gb|DR340848.1|DR340848
EST:     AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAG                         CCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC
genomic: AGTTAACAGACTGAACAAAACAAAAGTTGAAAGAACCCCTGATCTGAGAGgttagtattt ... gttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataacttcaagatctatgaaaataatttgattgttcataactgtgttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATCTGAGGGAGAAG
                   aaaataatttgattgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtatttgttttgtgagctcttcctcagattctaataggtagaagattgatcatgcatacatctttctcgtttaacaattttcctgctgatgaagtgtcagttaagtgtctgtagtttttccagtcagtataacttcaagatctatgaaaataatttgattgttcataactgtgttgatgaagCCGAGAGAGAAGCAGTGAATGCCGCAGAAAGGGCAGAGAGGAAACAACATCTGAGGGAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA