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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGGGAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaatacataacatctatcaaggcctagcttgttcatttggtttatagctttcaaaacatagcccttcaaaatttaaatcttccgttaatgttatag

Basic information

species Arabidopsis thaliana
transcript AT1G09340.1
intron # 5
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|125039477|gb|EL111746.1|EL111746
EST:     AGGCCGAAGAAGTTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTAT
genomic: AGGCCGAAGAAG-TTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTAT
EST: gi|124896628|gb|EH972842.1|EH972842
EST:     AAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAAGAGCA                         GTACATCTACTGTTCTTCA
genomic: AAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTA-GAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCA
EST: gi|124868450|gb|EH952887.1|EH952887
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGG
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGG
EST: gi|124936561|gb|EL013443.1|EL013443
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAG
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAG
EST: gi|124844318|gb|EH928755.1|EH928755
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATAT
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATAT
EST: gi|125030830|gb|EL103099.1|EL103099
EST:     CCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
genomic: CCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
EST: gi|125318501|gb|EL332586.1|EL332586
EST:     AGGCCGAAGAAGTTGACGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTG
genomic: AGGCCGAAGAAGTTGA-GCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTG
EST: gi|125195260|gb|EL210214.1|EL210214
EST:     CCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
genomic: CCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
EST: gi|125020766|gb|EL093035.1|EL093035
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAAT
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAAT
EST: gi|125207517|gb|EL222471.1|EL222471
EST:     ACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
genomic: ACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
EST: gi|124750536|gb|EH840666.1|EH840666
EST:     CTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
genomic: CTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
EST: gi|125187527|gb|EL202481.1|EL202481
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTG
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTG
EST: gi|125213423|gb|EL228255.1|EL228255
EST:     GAGGCCGAAGAAGTTGAG-CCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAG
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAG
EST: gi|116412032|gb|EG454624.1|EG454624
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAA
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAA
EST: gi|124826132|gb|EH910998.1|EH910998
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAAT
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAAT
EST: gi|125215063|gb|EL229267.1|EL229267
EST:     GAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
genomic: GAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
EST: gi|125153427|gb|EL184574.1|EL184574
EST:     ACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGT
genomic: ACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGT
EST: gi|116412031|gb|EG454623.1|EG454623
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
EST: gi|125263216|gb|EL277301.1|EL277301
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTT
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTT
EST: gi|124867224|gb|EH951661.1|EH951661
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAG
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAG
EST: gi|125169805|gb|EL193623.1|EL193623
EST:     GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTT
genomic: GAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTT
EST: gi|124959439|gb|EL034143.1|EL034143
EST:     ACTACCCAAACTAGAGCA                         GTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC
genomic: ACTACCCAAACTAGAGCAgtaagtaata ... aatgttatagGTACATCTACTGTTCTTCAGCTGGTGTTTATCTGAAATCTGATATCTTGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAGGGAGGCCGAAGAAGTTGAGCCCATACTAGAAGCACTACCCAAACTAGAGCAgtaagtaatacataacatctatcaaggcctagcttgttcatttggtttatagctttcaaaacatagcccttcaaaatttaaatcttccgttaatgttatag

- - - - - CGAAGA
- - - - - - AAGAAG
- - - - - -  AGAAGT
- - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA