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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCTTCATCCATACATTCACCACCAGCCCGTGATGGCCTGATCTGCTTCCTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAGgtgaattattttctaaagtttccatttttgttaacaatataaaaaaaaaaattgaagtcaaagaagactgttccattttttgggtttcatataaaaaaaaaatgggtgatgacattttctgtaatctttcattgtatggatttgtttag

Basic information

species Arabidopsis thaliana
transcript AT4G29220.1
intron # 1
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|86060993|gb|DR356750.1|DR356750
EST:     CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAG                         ATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATCA
genomic: CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAGgtgaattatt ... atttgtttagATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATCA
EST: gi|86060998|gb|DR356755.1|DR356755
EST:     CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAG                         ATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATCA
genomic: CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAGgtgaattatt ... atttgtttagATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATCA
EST: gi|86060997|gb|DR356754.1|DR356754
EST:     CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAG                         ATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATCA
genomic: CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAGgtgaattatt ... atttgtttagATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATCA
EST: gi|86060992|gb|DR356749.1|DR356749
EST:     CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAG                         ATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATCS
genomic: CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAGgtgaattatt ... atttgtttagATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATC-
EST: gi|86060994|gb|DR356751.1|DR356751
EST:     CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAG                         ATTCCGATCATCTTCACGTCGGAGTACAYAATCTGAAACCGATCATCATCA
genomic: CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAGgtgaattatt ... atttgtttagATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATCA
EST: gi|86060996|gb|DR356753.1|DR356753
EST:     CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAG                         ATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATCA
genomic: CTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAGgtgaattatt ... atttgtttagATTCCGATCATCTTCACGTCGGAGTACACAATCTGAAACCGATCATCATCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTCTTCATCCATACATTCACCACCAGCCCGTGATGGCCTGATCTGCTTCCTCCTCCTCCTTACTTCTTGTTTCCATCTTGGTTTCAAATTTCTTCAAAGgtgaattattttctaaagtttccatttttgttaacaatataaaaaaaaaaattgaagtcaaagaagactgttccattttttgggtttcatataaaaaaaaaatgggtgatgacattttctgtaatctttcattgtatggatttgtttag

- - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC