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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTAGGACGAAGGTGTTTCACCCTAATATCAACAGCAACGGAAGCATTTGCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctcatttttcagaaacatcggttctccaatgttcgtttatgttccaaaagtatagcaagagcatctacattttcagctaggattttgctcaatgcacaagctttgcttcttgaatgtttgtgtatgtagtaagatcatcatctctagtttttagctgttttaatggaaatgtttatgcaattggtag

Basic information

species Arabidopsis thaliana
transcript AT5G41700.4
intron # 4
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|124933888|gb|EL011005.1|EL011005
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGT
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGT
EST: gi|125192233|gb|EL207187.1|EL207187
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGAT
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGAT
EST: gi|125196991|gb|EL211945.1|EL211945
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAA
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAA
EST: gi|164145518|gb|ES051442.1|ES051442
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAG
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAG
EST: gi|124867520|gb|EH951957.1|EH951957
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCG
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCG
EST: gi|116411812|gb|EG454404.1|EG454404
EST:     G-CTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|124887695|gb|EH966597.1|EH966597
EST:     CCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
genomic: CCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|163989623|gb|EL982844.1|EL982844
EST:     GCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
genomic: GCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|125018305|gb|EL090574.1|EL090574
EST:     GAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
genomic: GAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|125254385|gb|EL268470.1|EL268470
EST:     TTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCACTGTTAACAGATCCAAATCCAGATGACCCT
genomic: TTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|164031964|gb|ES035435.1|ES035435
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCC
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCC
EST: gi|125316903|gb|EL330988.1|EL330988
EST:     CCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
genomic: CCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|125321815|gb|EL335900.1|EL335900
EST:     GCCTTGACATTTTGAAATAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATACCAAA
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGAT-CCAAA
EST: gi|124752658|gb|EH842788.1|EH842788
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCA
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCA
EST: gi|124956862|gb|EL031744.1|EL031744
EST:     CCTTGACATTTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAG
genomic: CCTTGACA-TTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAG
EST: gi|124935541|gb|EL012517.1|EL012517
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATG
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATG
EST: gi|116411821|gb|EG454413.1|EG454413
EST:     G-CTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|124948779|gb|EL024490.1|EL024490
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATA
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATA
EST: gi|124750881|gb|EH841011.1|EH841011
EST:     CCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
genomic: CCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|125005673|gb|EL077942.1|EL077942
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGAT
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGAT
EST: gi|125247172|gb|EL261257.1|EL261257
EST:     TCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCG
genomic: -CCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCG
EST: gi|125124125|gb|EL170260.1|EL170260
EST:     CTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
genomic: CTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|124947031|gb|EL022901.1|EL022901
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGA
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGA
EST: gi|125273580|gb|EL287665.1|EL287665
EST:     CCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
genomic: CCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|164205235|gb|ES192640.1|ES192640
EST:     GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGA
genomic: GCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGA
EST: gi|116419398|gb|EG461990.1|EG461990
EST:     TGGAGCCCTGCCCTCACCATTTCCAGG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
genomic: TGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAGATGACCCT
EST: gi|124848246|gb|EH932683.1|EH932683
EST:     CAATGGAGCCCTGCCCTCACCATTTCCAAG                         GTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCAAGATGACCC
genomic: CAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctca ... caattggtagGTGTTGCTCTCGATATGTTCGCTGTTAACAGATCCAAATCCA-GATGACCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTAGGACGAAGGTGTTTCACCCTAATATCAACAGCAACGGAAGCATTTGCCTTGACATTTTGAAAGAACAATGGAGCCCTGCCCTCACCATTTCCAAGgtgactctcatttttcagaaacatcggttctccaatgttcgtttatgttccaaaagtatagcaagagcatctacattttcagctaggattttgctcaatgcacaagctttgcttcttgaatgtttgtgtatgtagtaagatcatcatctctagtttttagctgttttaatggaaatgtttatgcaattggtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC