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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCACTTCCAGAGGCTTTGTTGAGGAAGACTTTGCCAAAGTAGCTGAATACTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttacttctctgatcacgatgctatgctttccgttcttatatacaatgattgaactcatttgttatgtttctaaaaccag

Basic information

species Arabidopsis thaliana
transcript AT4G37930.1
intron # 14
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|116411252|gb|EG453844.1|EG453844
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
EST: gi|124906046|gb|EH980126.1|EH980126
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTC
EST: gi|86059292|gb|DR355049.1|DR355049
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
EST: gi|124948495|gb|EL024236.1|EL024236
EST:     CAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
genomic: CAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
EST: gi|125286407|gb|EL300492.1|EL300492
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCC
EST: gi|125270199|gb|EL284284.1|EL284284
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTC
EST: gi|124742146|gb|EH833308.1|EH833308
EST:     TTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTACAAG                         GAACCAAGTTGAAGGATTTCGTGTCA
genomic: TTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCT-CAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCA
EST: gi|124815151|gb|EH900017.1|EH900017
EST:     ATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCG
genomic: ATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCG
EST: gi|124927926|gb|EL005616.1|EL005616
EST:     ACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATC
genomic: ACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTG-AAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATC
EST: gi|125140297|gb|EL178616.1|EL178616
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGT
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGT
EST: gi|125302636|gb|EL316721.1|EL316721
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAG
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAG
EST: gi|124799080|gb|EH888759.1|EH888759
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGC
EST: gi|116484717|gb|EG527309.1|EG527309
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATTTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
EST: gi|124824601|gb|EH909467.1|EH909467
EST:     ATAGCTCTCAAAGTCAAATCTGAAGACTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGTATCCTCTTCAACCATC
genomic: ATAGCTCTCAAAGTCAAATCTGAAG-CTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATC
EST: gi|125125898|gb|EL171331.1|EL171331
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAG
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAG
EST: gi|125109163|gb|EL161746.1|EL161746
EST:     TCGACAAAGCTGTGACAATAAGCTCTCAAAGTCAAATCTGAAGCTCAAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAA
genomic: TCGACAAAGCTGTGACAATA-GCTCTCAAAGTCAAATCTGAAGCTCAA-Ggtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAA
EST: gi|125010101|gb|EL082370.1|EL082370
EST:     TTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAA
genomic: TTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAA-Ggtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAA
EST: gi|124954046|gb|EL029177.1|EL029177
EST:     TGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
genomic: TGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
EST: gi|86079465|gb|DR375222.1|DR375222
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
EST: gi|116484716|gb|EG527308.1|EG527308
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
EST: gi|116464220|gb|EG506812.1|EG506812
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
EST: gi|116484726|gb|EG527318.1|EG527318
EST:     CTTCGACAAAGCTGTGACAATAGCTTTCAAAGTCAAATTTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTTTTCAACCATCC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
EST: gi|124977219|gb|EL050568.1|EL050568
EST:     GCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTT
genomic: GCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTT
EST: gi|124716422|gb|EH807824.1|EH807824
EST:     TGACAATAGCTCTCAAAGTCAAATCTTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCA
genomic: TGACAATAGCTCTCAAAGTCAAATC-TGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCA
EST: gi|116484725|gb|EG527317.1|EG527317
EST:     CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAG                         GAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC
genomic: CTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttactt ... ctaaaaccagGAACCAAGTTGAAGGATTTCGTGTCAGCAATGGAATCCTCTTCAACCATCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCACTTCCAGAGGCTTTGTTGAGGAAGACTTTGCCAAAGTAGCTGAATACTTCGACAAAGCTGTGACAATAGCTCTCAAAGTCAAATCTGAAGCTCAAGgtttttacttctctgatcacgatgctatgctttccgttcttatatacaatgattgaactcatttgttatgtttctaaaaccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA