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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtttaaactttcaatctttatatcagagtaagcttgttactctttgggtgagacagttttataattgatattttttttctccctgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCACGATTGTTGATGACCTCGTGTCCCCGGACAACCTCATTGAAGACTTCCT

Basic information

species Arabidopsis thaliana
transcript AT5G19510.1
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|164074180|gb|ES139160.1|ES139160
EST:     GAAGAGGCTGTTCGTGGTGTTGAGACTGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAA-CTCACAATTATGTTCA
genomic: GAAGAGGCTGTTCGTGGTGTTGAGA-TGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|164152779|gb|EL971118.1|EL971118
EST:     GAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGT
genomic: GAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGT
EST: gi|86079718|gb|DR375475.1|DR375475
EST:     AGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTMCCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCM
genomic: AGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|86085215|gb|DR380974.1|DR380974
EST:     GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|124785557|gb|EH875236.1|EH875236
EST:     AGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: AGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|164075058|gb|ES112256.1|ES112256
EST:     CTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCAACAATTATGTTC
genomic: CTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCA-CAATTATGTTC
EST: gi|164233084|gb|ES155458.1|ES155458
EST:     GATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTAGGTTCA
genomic: GATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|125021637|gb|EL093906.1|EL093906
EST:     GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCA
genomic: GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCA
EST: gi|124781499|gb|EH871442.1|EH871442
EST:     CTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAAGAAACTCACAATTATGTTC
genomic: CTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATC-AAGAAACTCACAATTATGTTC
EST: gi|125190272|gb|EL205226.1|EL205226
EST:     TGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: TGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|163995005|gb|ES160093.1|ES160093
EST:     CTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: CTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|124937446|gb|EL014209.1|EL014209
EST:     ATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: ATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|164070773|gb|ES122241.1|ES122241
EST:     GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|125246181|gb|EL260266.1|EL260266
EST:     GCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: GCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|125028600|gb|EL100869.1|EL100869
EST:     GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAG
genomic: GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAG
EST: gi|125297194|gb|EL311279.1|EL311279
EST:     GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGA
genomic: GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGA
EST: gi|164233076|gb|EL968045.1|EL968045
EST:     GAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTT-CTGGGGAGCCT                         CAAAACTTGTACCAGTTGGT
genomic: GAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGT
EST: gi|125184954|gb|EL199908.1|EL199908
EST:     AAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTACTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: AAGAGGCTGTTCGTGGTGTTGAGATGCCTGGT-CTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|86018111|gb|DR313857.1|DR313857
EST:     TGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: TGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|125243646|gb|EL257731.1|EL257731
EST:     AAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: AAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|164174383|gb|ES104794.1|ES104794
EST:     GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGG
genomic: GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGG
EST: gi|116423792|gb|EG466384.1|EG466384
EST:     GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
EST: gi|164178661|gb|EL997981.1|EL997981
EST:     GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAG
genomic: GGAAGAGGCTGTTCGTGGTGTTGAGATGCCTGGTCTTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAG
EST: gi|125294989|gb|EL309074.1|EL309074
EST:     TTTTCTGGGGAGCCT                         CAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA
genomic: TTTTCTGGGGAGCCTgtacgtttaa ... tgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actctttgggtgagacagttttataattgatattttttttctccctgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCACGATTGTTGATGACCTCGTGTCCCCGGACAACCTCATTGAAGACTTCCT
                        aattgat  putative branch site (score: 4)
                              tattttttttctccct  CT-rich tract
            agacagttttataatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtttaaactttcaatctttatatcagagtaagcttgttactctttgggtgagacagttttataattgatattttttttctccctgtcttgcagCAAAACTTGTACCAGTTGGTTATGGGATCAAGAAACTCACAATTATGTTCACGATTGTTGATGACCTCGTGTCCCCGGACAACCTCATTGAAGACTTCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA