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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTCATGGCCAGCACTAGGAAGACTGAGCTTGTTCAGGTCATGGTAGATGTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAGgtaactatgaccgcaatttttggtttttgatgtctcctctttgaatgctaataccatgcacatgagaattgtttattttcatctcatttcctgatattga...

Basic information

species Arabidopsis thaliana
transcript AT5G53310.1
intron # 2
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|125210740|gb|EL225694.1|EL225694
EST:     TGAAGTGCTTCTCTCTAACAG                         ATTTGAGTACAATGCATCTGCCTCATTAGTAAAGGAAGTTTCTTTTGAGGA
genomic: TGAAGTGCTTCTCTCTAACAGgtaactatga ... ttcattccagATTTGAGTACAATGCATCTGCCTCATTAGTAAAGGAAGTTTCTTTTGAGGA
EST: gi|116468126|gb|EG510718.1|EG510718
EST:     GTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAG                         ATTTGAGTACAATGCATCTGCCTCATTAGTAAAGGAAGTTTCTTTTGAGGA
genomic: GTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAGgtaactatga ... ttcattccagATTTGAGTACAATGCATCTGCCTCATTAGTAAAGGAAGTTTCTTTTGAGGA
EST: gi|124785329|gb|EH875008.1|EH875008
EST:     CTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAG                         ATTTGAGTACAATGCATCTGCCTCATTAGTAAAGGAAGTTTCTTTTGAG
genomic: CTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAGgtaactatga ... ttcattccagATTTGAGTACAATGCATCTGCCTCATTAGTAAAGGAAGTTTCTTTTGAG
EST: gi|124904749|gb|EH978829.1|EH978829
EST:     GTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAG                         ATTTGAGTACAATGC
genomic: GTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAGgtaactatga ... ttcattccagATTTGAGTACAATGC
EST: gi|116477869|gb|EG520461.1|EG520461
EST:     GTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAG                         ATTTGAGTACAATGCATCTGCCTCATTAGTAAAGGAAGTTTCTTTTGAGGA
genomic: GTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAGgtaactatga ... ttcattccagATTTGAGTACAATGCATCTGCCTCATTAGTAAAGGAAGTTTCTTTTGAGGA
EST: gi|86077160|gb|DR372917.1|DR372917
EST:     GTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAG                         ATTTGAGTACAATGCATCTGCCTCATTAGTAAAGGAAGTTTCTTTTGAGGA
genomic: GTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAGgtaactatga ... ttcattccagATTTGAGTACAATGCATCTGCCTCATTAGTAAAGGAAGTTTCTTTTGAGGA
EST: gi|116477868|gb|EG520460.1|EG520460
EST:     GTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAG                         ATTTGAGTACAA
genomic: GTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAGgtaactatga ... ttcattccagATTTGAGTACAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTTCATGGCCAGCACTAGGAAGACTGAGCTTGTTCAGGTCATGGTAGATGTCACTAAAAGTGCTTCTGACTATGAACTTGAAGTGCTTCTCTCTAACAGgtaactatgaccgcaatttttggtttttgatgtctcctctttgaatgctaataccatgcacatgagaattgtttattttcatctcatttcctgatattga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcctctt