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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattcaaaaacccttctttgttctccatctttaagcctctctatctcgcggttattctcagtgtcttatctttctttcttccagGTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCTATCTGCAGTACTTGCTGCTCTAGCTTTTGGGTATGCTTCAGGATCTGGA

Basic information

species Arabidopsis thaliana
transcript AT1G32080.1
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|125322790|gb|EL336875.1|EL336875
EST:     CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGG                         GTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCT
genomic: CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGGgtaatattca ... tttcttccagGTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCT
EST: gi|125085893|gb|EL145564.1|EL145564
EST:     CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGG                         GTTGCCATCTTCTATTAAGAAAG
genomic: CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGGgtaatattca ... tttcttccagGTTGCCATCTTCTATTAAGAAAG
EST: gi|125039694|gb|EL111963.1|EL111963
EST:     CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGG                         GTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATA
genomic: CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGGgtaatattca ... tttcttccagGTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATA
EST: gi|86047418|gb|DR343173.1|DR343173
EST:     CTCCCTTTCCTTCTTTCTTCAAMTGTGCTAGGTTACATTGTAGGTTCTGG                         GTTGC-ATCTTCTATTA-GAAAGTTTTCCATCCGATAATCTGCTGCGCGCT
genomic: CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGGgtaatattca ... tttcttccagGTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCT
EST: gi|124915038|gb|EH988912.1|EH988912
EST:     TGCTAGGTTACATTGTAGGTTCTGG                         GTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCT
genomic: TGCTAGGTTACATTGTAGGTTCTGGgtaatattca ... tttcttccagGTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCT
EST: gi|125282049|gb|EL296134.1|EL296134
EST:     CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGG                         GTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCT
genomic: CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGGgtaatattca ... tttcttccagGTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCT
EST: gi|86047419|gb|DR343174.1|DR343174
EST:     CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGG                         GTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCT
genomic: CTCCCTTTCCTTCTTTCTTCAACTGTGCTAGGTTACATTGTAGGTTCTGGgtaatattca ... tttcttccagGTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaagcctctctatctcgcggttattctcagtgtcttatctttctttcttccagGTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCTATCTGCAGTACTTGCTGCTCTAGCTTTTGGGTATGCTTCAGGATCTGGA
                         ttctcagtgtcttatc  CT-rich tract
                                    ttatcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatattcaaaaacccttctttgttctccatctttaagcctctctatctcgcggttattctcagtgtcttatctttctttcttccagGTTGCCATCTTCTATTAAGAAAGTTTTCCATCCGATAATCTGCTGCGCGCTATCTGCAGTACTTGCTGCTCTAGCTTTTGGGTATGCTTCAGGATCTGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT