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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGTTTTGGCAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaatactccatttattttttcagttaacactttatttattcattagaatcatagatagtcatcaaccttaacaaaaatataaatattggataattaaattatctttatcggaaatgttttctaatatgaatgtatgaatattgcag

Basic information

species Arabidopsis thaliana
transcript AT5G14740.1
intron # 9
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|125041353|gb|EL113622.1|EL113622
EST:     TTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
genomic: TTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
EST: gi|125059620|gb|EL128297.1|EL128297
EST:     AAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
genomic: AAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
EST: gi|124961880|gb|EL036343.1|EL036343
EST:     GAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
genomic: GAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
EST: gi|124888791|gb|EH967693.1|EH967693
EST:     AGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
genomic: AGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
EST: gi|124852871|gb|EH937308.1|EH937308
EST:     CATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGNGAGA
genomic: CATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
EST: gi|124952462|gb|EL027730.1|EL027730
EST:     CATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTG-CATATCCATTTGTGAGA
genomic: CATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
EST: gi|124918613|gb|EH992435.1|EH992435
EST:     CAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGACAAGTGAATGTGTCACTAGCAAACCTA
genomic: CAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGG-CA-GTGAATGTGTCACTAGCAAACCTA
EST: gi|124908488|gb|EH982568.1|EH982568
EST:     CAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTG
genomic: CAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTG
EST: gi|125294676|gb|EL308761.1|EL308761
EST:     CAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCC
genomic: CAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCC
EST: gi|124999808|gb|EL072077.1|EL072077
EST:     CAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGT
genomic: CAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGT
EST: gi|125229005|gb|EL243090.1|EL243090
EST:     CATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
genomic: CATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
EST: gi|125138275|gb|EL177739.1|EL177739
EST:     GATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
genomic: GATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTTGTGAGA
EST: gi|125263191|gb|EL277276.1|EL277276
EST:     AAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGG                         GAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTT
genomic: AAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaata ... aatattgcagGAGGCAGTGAATGTGTCACTAGCAAACCTATTGACATATCCATTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATAGAGGATTGGGTCAAAATCTGTTTACCAGCAAAGTCAAAAGTTTTGGCAGAAAGTGAAAGTTCAGCATTTGAAGACCAATGTGGCCGATGCGAAAGGgtacgtaatactccatttattttttcagttaacactttatttattcattagaatcatagatagtcatcaaccttaacaaaaatataaatattggataattaaattatctttatcggaaatgttttctaatatgaatgtatgaatattgcag

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