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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttctccattcgtcttacaagcctcattcccttgattacccgagtaacttgcttagatgcagtatgacaatataatgagtttttagacagacatcattgaatggcgaaagatgcaacctttatacgatctaacattgttctgtgtttggtgcagCGAATGAGAGCACGAGAAAGCGAGTGATATTCTACACAGTAGGAGAGTACATTTTCCTTGCCGCAGCTAGTGGACTTCAAGTTCTCTACATCCGCAAGCT

Basic information

species Arabidopsis thaliana
transcript AT3G22845.1
intron # 3
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|164123747|gb|ES145398.1|ES145398
EST:     TGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATA                         CGAATGAGAGCACGAGAAAGCGAGTGA
genomic: TGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATAgtaagttttc ... tttggtgcagCGAATGAGAGCACGAGAAAGCGAGTGA
EST: gi|47828544|gb|CK118228.1|CK118228
EST:     TGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATA                         CGAATGAGAGCACGAGAAAGCGAGTGATATTCTACACAGTAGGAGAGTACA
genomic: TGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATAgtaagttttc ... tttggtgcagCGAATGAGAGCACGAGAAAGCGAGTGATATTCTACACAGTAGGAGAGTACA
EST: gi|164116213|gb|ES161926.1|ES161926
EST:     TGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATA                         CGAATGAGAGCACGAGAAAGCG
genomic: TGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATAgtaagttttc ... tttggtgcagCGAATGAGAGCACGAGAAAGCG
EST: gi|86073424|gb|DR369181.1|DR369181
EST:     TGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATA                         CGAATGAGAGCACGAGAAAGCGAGTGATATTCTACACAGTAGGAGAGTACA
genomic: TGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATAgtaagttttc ... tttggtgcagCGAATGAGAGCACGAGAAAGCGAGTGATATTCTACACAGTAGGAGAGTACA
EST: gi|47828547|gb|CK118231.1|CK118231
EST:     TGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATA                         CGAATGAGAGCACGAGAAAGCGAGTGATATTCTACACAGTAGGAGAGTACA
genomic: TGTTGCTGAGCAGAAGTATTTGAAAGCTCGTGACACTCGTCACCGTCATAgtaagttttc ... tttggtgcagCGAATGAGAGCACGAGAAAGCGAGTGATATTCTACACAGTAGGAGAGTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatggcgaaagatgcaacctttatacgatctaacattgttctgtgtttggtgcagCGAATGAGAGCACGAGAAAGCGAGTGATATTCTACACAGTAGGAGAGTACATTTTCCTTGCCGCAGCTAGTGGACTTCAAGTTCTCTACATCCGCAAGCT
                           atctaac  putative branch site (score: 2)
                   tttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttttctccattcgtcttacaagcctcattcccttgattacccgagtaacttgcttagatgcagtatgacaatataatgagtttttagacagacatcattgaatggcgaaagatgcaacctttatacgatctaacattgttctgtgtttggtgcagCGAATGAGAGCACGAGAAAGCGAGTGATATTCTACACAGTAGGAGAGTACATTTTCCTTGCCGCAGCTAGTGGACTTCAAGTTCTCTACATCCGCAAGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT