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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgacctagtttctagagaggatcaagactattgtttgaatataatgaatgctgattgttcaattgtctttcagGTGAGATGGGATGAGACTTCTAGTATTCCTCGACCTGATAGAGTATCTCCGTGGAAAGTAGAGCCAGCTCTTGCTCCTCCTGCTTTGAGTCCTGTTCCAA

Basic information

species Arabidopsis thaliana
transcript AT5G62000.1
intron # 10
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|116434213|gb|EG476805.1|EG476805
EST:     AAGAGTCTGATCCTACTAGGTGGCCAAAATCAAAGTGGAGATCCCTCAAG                         GTGAGATGGGATGAGACTTCTAGTATTCCTCGACCTGATAGAGTACCTCCG
genomic: AAGAGTCTGATCCTACTAGGTGGCCAAAATCAAAGTGGAGATCCCTCAAGgtatgaccta ... tgtctttcagGTGAGATGGGATGAGACTTCTAGTATTCCTCGACCTGATAGAGTATCTCCG
EST: gi|116434209|gb|EG476801.1|EG476801
EST:     AAGAGTCTGATCCTACTAGGTGGCCAAAATCAAAGTGGAGATCCCTCAAG                         GTGAGATGGGATGAGACTTCTAGTATTCCTCGACCTGATAGAGTATCTCCG
genomic: AAGAGTCTGATCCTACTAGGTGGCCAAAATCAAAGTGGAGATCCCTCAAGgtatgaccta ... tgtctttcagGTGAGATGGGATGAGACTTCTAGTATTCCTCGACCTGATAGAGTATCTCCG
EST: gi|116407719|gb|EG450311.1|EG450311
EST:     AAGAGTCTGATCCTACTAGGTGGCCAAAATCAAAGTGGAGATCCCTCAAG                         GTGAGATGGGATGAGACTTCTAGTATTCCTCGACC
genomic: AAGAGTCTGATCCTACTAGGTGGCCAAAATCAAAGTGGAGATCCCTCAAGgtatgaccta ... tgtctttcagGTGAGATGGGATGAGACTTCTAGTATTCCTCGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatcaagactattgtttgaatataatgaatgctgattgttcaattgtctttcagGTGAGATGGGATGAGACTTCTAGTATTCCTCGACCTGATAGAGTATCTCCGTGGAAAGTAGAGCCAGCTCTTGCTCCTCCTGCTTTGAGTCCTGTTCCAA
                              tgctgat  putative branch site (score: 3)
                                            ttgtctttc  putative PPT
          tattgtttgaatataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgacctagtttctagagaggatcaagactattgtttgaatataatgaatgctgattgttcaattgtctttcagGTGAGATGGGATGAGACTTCTAGTATTCCTCGACCTGATAGAGTATCTCCGTGGAAAGTAGAGCCAGCTCTTGCTCCTCCTGCTTTGAGTCCTGTTCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC