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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtttatttgtccctttcaactttgtatactgttgagtgttgatagatagtctgtgatgatgacaaacactttgattcaatctttttttgcagGTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG

Basic information

species Arabidopsis thaliana
transcript AT3G10405.1
intron # 1
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|86051113|gb|DR346868.1|DR346868
EST:     ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCA                         GTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
genomic: ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCAgtcagtttat ... ttttttgcagGTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
EST: gi|86051114|gb|DR346869.1|DR346869
EST:     ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCA                         GTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
genomic: ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCAgtcagtttat ... ttttttgcagGTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
EST: gi|125265952|gb|EL280037.1|EL280037
EST:     ATCCTCGATTCGGCCCTCCA                         GTTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
genomic: ATCCTCGATTCGGCCCTCCAgtcagtttat ... ttttttgcagG-TTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
EST: gi|124833142|gb|EH917581.1|EH917581
EST:     ATCCTCGATTCGGCCCTCCA                         GTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
genomic: ATCCTCGATTCGGCCCTCCAgtcagtttat ... ttttttgcagGTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
EST: gi|116463250|gb|EG505842.1|EG505842
EST:     ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCA                         GTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
genomic: ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCAgtcagtttat ... ttttttgcagGTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
EST: gi|125132940|gb|EL174700.1|EL174700
EST:     ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCA                         GTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAG
genomic: ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCAgtcagtttat ... ttttttgcagGTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAG
EST: gi|86051116|gb|DR346871.1|DR346871
EST:     ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCA                         GTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
genomic: ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCAgtcagtttat ... ttttttgcagGTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
EST: gi|86051115|gb|DR346870.1|DR346870
EST:     ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCA                         GTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
genomic: ATTCCAAGTTTGTACCTTTAGATCCTCAAGATCCTCGATTCGGCCCTCCAgtcagtttat ... ttttttgcagGTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgatagatagtctgtgatgatgacaaacactttgattcaatctttttttgcagGTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG
                                     ttcaatcttttttt  CT-rich tract
                                    attcaatcttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtttatttgtccctttcaactttgtatactgttgagtgttgatagatagtctgtgatgatgacaaacactttgattcaatctttttttgcagGTTTTGCTGTTGCTTGGCCTTCAACTTCATGAAGCACAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC