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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattgaatcattgttactttcatattaaatatcttaaggtcttgatgtaataccgaactatcctacgcttaccatcttcctccttgttatttggcagTTGTGTACCGCTATTCGACTTTAACTATATCTATAACCACTTGATCTTCGCGAATCTCAGCTTCATTGATTG

Basic information

species Arabidopsis thaliana
transcript AT4G31350.2
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|164188332|gb|EL983768.1|EL983768
EST:     CATGCTCTCGTTGATCCTGATAATCAACACTTTATATTGCTGTCAGATAG                         TTGTGTACCGCTATTCGACTTTAACTATA
genomic: CATGCTCTCGTTGATCCTGATAATCAACACTTTATATTGCTGTCAGATAGgtgattgaat ... tatttggcagTTGTGTACCGCTATTCGACTTTAACTATA
EST: gi|163967404|gb|ES039667.1|ES039667
EST:     GTTGATCCTGATAATCAACACTTTATATTGCTGTCAGATAG                         TTGTGTACCGCTATTCGACTTTAACTATATCTATAACCACTTGATCTTCG
genomic: GTTGATCCTGATAATCAACACTTTATATTGCTGTCAGATAGgtgattgaat ... tatttggcagTTGTGTACCGCTATTCGACTTTAACTATATCTATAACCACTTGATCTTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatgtaataccgaactatcctacgcttaccatcttcctccttgttatttggcagTTGTGTACCGCTATTCGACTTTAACTATATCTATAACCACTTGATCTTCGCGAATCTCAGCTTCATTGATTG
                       cgcttac  putative branch site (score: 3)
                         cttaccatcttcctcc  CT-rich tract
                                         ttgttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgattgaatcattgttactttcatattaaatatcttaaggtcttgatgtaataccgaactatcctacgcttaccatcttcctccttgttatttggcagTTGTGTACCGCTATTCGACTTTAACTATATCTATAACCACTTGATCTTCGCGAATCTCAGCTTCATTGATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT