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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactattattaaacttttaacccacgaatattgtctcttttgagttaccatataaaagctctctctaaggttcccactctgatagtgttattattaatgtctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTACAG

Basic information

species Arabidopsis thaliana
transcript AT5G64130.1
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|116474180|gb|EG516772.1|EG516772
EST:     GATCATGAGCGAGCATACTGTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAA
genomic: GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAA
EST: gi|152038486|gb|AV824182.2|AV824182
EST:     GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
genomic: GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
EST: gi|164220498|gb|ES039606.1|ES039606
EST:     CAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
genomic: CAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
EST: gi|164236086|gb|ES158095.1|ES158095
EST:     ATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
genomic: ATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
EST: gi|124750706|gb|EH840836.1|EH840836
EST:     GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGA
genomic: GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGA
EST: gi|47828491|gb|CK118175.1|CK118175
EST:     GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
genomic: GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
EST: gi|125113212|gb|EL164105.1|EL164105
EST:     AGGATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAGG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAG
genomic: AGGATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAG
EST: gi|152034695|gb|BP834900.2|BP834900
EST:     GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCAAAGTTA
genomic: GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
EST: gi|86059149|gb|DR354906.1|DR354906
EST:     GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
genomic: GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
EST: gi|86059148|gb|DR354905.1|DR354905
EST:     GRTCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAMGC-AAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
genomic: GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
EST: gi|164086161|gb|ES106418.1|ES106418
EST:     TGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAAGACCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGT
genomic: TGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAA-G-CCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGT
EST: gi|164142576|gb|ES212946.1|ES212946
EST:     GGATCATGAGTCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGACCAAAGGGACCCCTGGAAGCCCTTCGTCCCA
genomic: GGATCATGAG-CGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAG-CCAAAGGGACCCCTGGAAGCCCTTCGTCCCA
EST: gi|125212655|gb|EL227609.1|EL227609
EST:     TACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
genomic: TACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
EST: gi|164152477|gb|ES022085.1|ES022085
EST:     CAGCTGATTGGGCTCTTGGAAAG                         CTAAGGTTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGT
genomic: CAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagC-AAGG-TGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGT
EST: gi|86075858|gb|DR371615.1|DR371615
EST:     GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
genomic: GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
EST: gi|164057886|gb|ES187649.1|ES187649
EST:     TGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
genomic: TGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
EST: gi|86059150|gb|DR354907.1|DR354907
EST:     GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG                         CAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA
genomic: GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGgtaaactatt ... tctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagctctctctaaggttcccactctgatagtgttattattaatgtctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTACAG
                               tgttattattaatgtc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaactattattaaacttttaacccacgaatattgtctcttttgagttaccatataaaagctctctctaaggttcccactctgatagtgttattattaatgtctaaaacagCAAGGTGTTGCGAAGCCAAAGGGACCCCTGGAAGCCCTTCGTCCCAAGTTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG