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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattttaccttcgaatatggtttcaaaagtgtaacatattactatctgattctttgattatctctgtttttagCTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG

Basic information

species Arabidopsis thaliana
transcript AT4G22890.1
intron # 8
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|124744759|gb|EH835921.1|EH835921
EST:     ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAA                         CTGCGGAACCGCG
genomic: ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAAgtaagatttt ... ctgtttttagCTGCGGAACCGCG
EST: gi|124836994|gb|EH921433.1|EH921433
EST:     ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAA                         CTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCAC
genomic: ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAAgtaagatttt ... ctgtttttagCTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCAC
EST: gi|124971687|gb|EL045430.1|EL045430
EST:     ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAA                         CTGCGGAACCGCGATGGTGTA
genomic: ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAAgtaagatttt ... ctgtttttagCTGCGGAACCGCGATGGTGTA
EST: gi|124769874|gb|EH860004.1|EH860004
EST:     ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAA                         CTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGAT
genomic: ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAAgtaagatttt ... ctgtttttagCTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGAT
EST: gi|86077608|gb|DR373365.1|DR373365
EST:     ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAA                         CTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCC
genomic: ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAAgtaagatttt ... ctgtttttagCTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCC
EST: gi|124886029|gb|EH964931.1|EH964931
EST:     AATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAA                         CTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCC
genomic: AATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAAgtaagatttt ... ctgtttttagCTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCC
EST: gi|164072724|gb|ES009421.1|ES009421
EST:     GCGGCAAAACCAACACTGTCAAATGCACCAA                         CTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCC
genomic: GCGGCAAAACCAACACTGTCAAATGCACCAAgtaagatttt ... ctgtttttagCTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCC
EST: gi|86076317|gb|DR372074.1|DR372074
EST:     ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAA                         CTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCC
genomic: ATTCTGTCAATCTCCAGCGGCGGCAAAACCAACACTGTCAAATGCACCAAgtaagatttt ... ctgtttttagCTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttcaaaagtgtaacatattactatctgattctttgattatctctgtttttagCTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG
                                       ttatctctgttttt  CT-rich tract
             taacatattactat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagattttaccttcgaatatggtttcaaaagtgtaacatattactatctgattctttgattatctctgtttttagCTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT