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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcagttccttcaatctgagtttgcactagaagctgtctatgcaattggcaaaccgctttatttatcgtttactttgtcagGCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAGGACGGGTCAGCTGATCTAATCCGAGCTCTCAACAATCGTCTTGTTGCTT

Basic information

species Arabidopsis thaliana
transcript AT5G22510.1
intron # 4
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|116428552|gb|EG471144.1|EG471144
EST:     GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAG                         GCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
genomic: GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAGgtgagcagtt ... actttgtcagGCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
EST: gi|116434339|gb|EG476931.1|EG476931
EST:     CCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAG                         GCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
genomic: CCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAGgtgagcagtt ... actttgtcagGCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
EST: gi|116428537|gb|EG471129.1|EG471129
EST:     GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAG                         GCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
genomic: GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAGgtgagcagtt ... actttgtcagGCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
EST: gi|116428488|gb|EG471080.1|EG471080
EST:     GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAG                         GCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
genomic: GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAGgtgagcagtt ... actttgtcagGCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
EST: gi|125262882|gb|EL276967.1|EL276967
EST:     GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAG                         GCACTCTTTTAT
genomic: GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAGgtgagcagtt ... actttgtcagGCACTCTTTTAT
EST: gi|116428380|gb|EG470972.1|EG470972
EST:     GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAG                         GCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
genomic: GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAGgtgagcagtt ... actttgtcagGCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
EST: gi|116428546|gb|EG471138.1|EG471138
EST:     GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAG                         GCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
genomic: GCATGATAGACCGTCGAATGGGAATCCATGGTCATCCCCTGGAGATTCAGgtgagcagtt ... actttgtcagGCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
EST: gi|124706850|gb|EH798252.1|EH798252
EST:     ATGGTCATCCCCTGGAGATTCAG                         GCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG
genomic: ATGGTCATCCCCTGGAGATTCAGgtgagcagtt ... actttgtcagGCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagaagctgtctatgcaattggcaaaccgctttatttatcgtttactttgtcagGCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAGGACGGGTCAGCTGATCTAATCCGAGCTCTCAACAATCGTCTTGTTGCTT
                                          tttacttt  CT-rich tract
                               tttatttatcgttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcagttccttcaatctgagtttgcactagaagctgtctatgcaattggcaaaccgctttatttatcgtttactttgtcagGCACTCTTTTATTCGGCTTTGGTCTGCGCTCGTGAGATGCTTACGCCAGAGGACGGGTCAGCTGATCTAATCCGAGCTCTCAACAATCGTCTTGTTGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT