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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcgggtttgtttaagttttgttgttactttagaagacctgtggtttatatttgtgagcatttgaactagttattaaagttcatagtcttaaatgtgaacagATATACAAGAGAGCAAGTGAGGCATATGAAGCTTTGTCGACTAGGTTAGGTGAGCAGAAGTTTCTCTTTGAAGACAG

Basic information

species Arabidopsis thaliana
transcript AT2G19080.1
intron # 2
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|86050759|gb|DR346514.1|DR346514
EST:     AGAACCGTTTAGGAATCACCAAAGAGAACGCAGAGCNNNGAGANNNACAG                         ATATANNNGAGAGCAAGTGAGGCATATGAAGCTTTGTCGACTAGGTTAGGT
genomic: AGAACCGTTTAGGAATCACCAAAGAGAACGCAGAGCAAAGAGAAAAACAGgtcgggtttg ... atgtgaacagATATACAAGAGAGCAAGTGAGGCATATGAAGCTTTGTCGACTAGGTTAGGT
EST: gi|86050753|gb|DR346508.1|DR346508
EST:     AGAACCGTTTAGGAATCACCAAAGAGAACGCAGAGCAAAGAGAAGAACAG                         ATATACGAGAGAGCAAGTNAGGCATATGAAGCTTTGTCGACTAGGTTAGGT
genomic: AGAACCGTTTAGGAATCACCAAAGAGAACGCAGAGCAAAGAGAAAAACAGgtcgggtttg ... atgtgaacagATATACAAGAGAGCAAGTGAGGCATATGAAGCTTTGTCGACTAGGTTAGGT
EST: gi|86050758|gb|DR346513.1|DR346513
EST:     AGAACCGTTTAGGAATCACCAAAGAGAACGCAGAGCAAAGAGAAAAACAG                         ATATANNNGAGAGCAAGTGAGGCATATGAAGCTTTGTCGACTAGGTTAGGT
genomic: AGAACCGTTTAGGAATCACCAAAGAGAACGCAGAGCAAAGAGAAAAACAGgtcgggtttg ... atgtgaacagATATACAAGAGAGCAAGTGAGGCATATGAAGCTTTGTCGACTAGGTTAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatttgtgagcatttgaactagttattaaagttcatagtcttaaatgtgaacagATATACAAGAGAGCAAGTGAGGCATATGAAGCTTTGTCGACTAGGTTAGGTGAGCAGAAGTTTCTCTTTGAAGACAG
                       ttattaaagttcata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcgggtttgtttaagttttgttgttactttagaagacctgtggtttatatttgtgagcatttgaactagttattaaagttcatagtcttaaatgtgaacagATATACAAGAGAGCAAGTGAGGCATATGAAGCTTTGTCGACTAGGTTAGGTGAGCAGAAGTTTCTCTTTGAAGACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA