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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatattattgtatatgactgtgtttattggtaggatctgagttttattttttccctttttattatgctactgcttatgttaaaccatcctatggttttagGCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACTAGGTGGTGCAAAGCCAAATATGGATGAAAACGCAAGCAAAATAATAAGT

Basic information

species Arabidopsis thaliana
transcript AT2G28800.4
intron # 7
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|124843433|gb|EH927870.1|EH927870
EST:     ATGATCGGTTACTTTGCATTGTCTGTCCCATCAGGACTATCTNTTTACTG                         GCTCACAAATAATGTACTTAGTACC
genomic: ATGATCGGTTACTTTGCATTGTCTGTCCCATCAGGACTATCTATTTACTGgttggtttcc ... atggttttagGCTCACAAATAATGTACTTAGTACC
EST: gi|125150945|gb|EL183333.1|EL183333
EST:     ACTATCTATTTACTG                         GCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACT
genomic: ACTATCTATTTACTGgttggtttcc ... atggttttagGCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACT
EST: gi|86079787|gb|DR375544.1|DR375544
EST:     GGACTATCTATTTACTG                         GCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACT
genomic: GGACTATCTATTTACTGgttggtttcc ... atggttttagGCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACT
EST: gi|86079035|gb|DR374792.1|DR374792
EST:     GTTACTTTGCATTGTCTGTCCCATCAGGACTATCTATTTACTG                         GCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACT
genomic: GTTACTTTGCATTGTCTGTCCCATCAGGACTATCTATTTACTGgttggtttcc ... atggttttagGCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACT
EST: gi|124922240|gb|EL000549.1|EL000549
EST:     ACTATCTATTTACTG                         GCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACT
genomic: ACTATCTATTTACTGgttggtttcc ... atggttttagGCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACT
EST: gi|124971775|gb|EL045512.1|EL045512
EST:     CGGTTACTTTGCATTGTCTGTCCCATCAGGACTATCTATTTACTG                         GCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACT
genomic: CGGTTACTTTGCATTGTCTGTCCCATCAGGACTATCTATTTACTGgttggtttcc ... atggttttagGCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttttccctttttattatgctactgcttatgttaaaccatcctatggttttagGCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACTAGGTGGTGCAAAGCCAAATATGGATGAAAACGCAAGCAAAATAATAAGT
          tttttattatgcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatattattgtatatgactgtgtttattggtaggatctgagttttattttttccctttttattatgctactgcttatgttaaaccatcctatggttttagGCTCACAAATAATGTACTTAGTACCGCCCAACAAGTATATCTGCGTAAACTAGGTGGTGCAAAGCCAAATATGGATGAAAACGCAAGCAAAATAATAAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA