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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCTATGGTGAACCGGGTATCATGTGATAGCACTCAGGAGGGCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAGgtagctaagttcttcattttttttccttttgcttagttaatcagtgcattgctgtggtatctctgacttacttggcgattgtag

Basic information

species Arabidopsis thaliana
transcript AT5G04440.1
intron # 4
splice site 5'
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|86079894|gb|DR375651.1|DR375651
EST:     CTCAGGAGGGCTCATCAGAGCAACAAATTACTTAAGATGCAGTCATTGAG                         GTCAATATCGAGATTCCTTTTGCATTTAGAGTCTTCCCAGTGGGAGCAATA
genomic: CTCAGGAGGGCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAGgtagctaagt ... gcgattgtagGTCAATATCGAGATTCCTTTTGCATTTAGAGTCTTCCCAGTGGGAGCAATA
EST: gi|124866504|gb|EH950941.1|EH950941
EST:     CTCAGGAGGGCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAG                         GTCAATATCGAGATT
genomic: CTCAGGAGGGCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAGgtagctaagt ... gcgattgtagGTCAATATCGAGATT
EST: gi|19741783|gb|AU227136.1|AU227136
EST:     CTCA-GAGGCCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAG                         GTCAATATCGAGATTCCTTTTGCATTTAGAGTCTTCCCAGTGGGAGCAATA
genomic: CTCAGGAGGGCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAGgtagctaagt ... gcgattgtagGTCAATATCGAGATTCCTTTTGCATTTAGAGTCTTCCCAGTGGGAGCAATA
EST: gi|116428965|gb|EG471557.1|EG471557
EST:     CTCAGGAGGGCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAG                         GTCAATATCGAGATTCCTTTTGCATTTAGAGTCTTCCCAGTGGGAGCAATA
genomic: CTCAGGAGGGCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAGgtagctaagt ... gcgattgtagGTCAATATCGAGATTCCTTTTGCATTTAGAGTCTTCCCAGTGGGAGCAATA
EST: gi|124864551|gb|EH948988.1|EH948988
EST:     TCAGGAGGGCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAG                         GTCAATATCGAGATTCCTTTTGCATTTAGAGTCTTCCCAGTGGGAG
genomic: TCAGGAGGGCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAGgtagctaagt ... gcgattgtagGTCAATATCGAGATTCCTTTTGCATTTAGAGTCTTCCCAGTGGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTCTATGGTGAACCGGGTATCATGTGATAGCACTCAGGAGGGCTCATCAGAGCAACAAATTACTTCAGATGCAGTCATTGAGgtagctaagttcttcattttttttccttttgcttagttaatcagtgcattgctgtggtatctctgacttacttggcgattgtag

- - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG