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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTCAAAGCGGTACGTTTAAGGATGGAGATCTACGTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtctttcctcttcctcgttcggtgctgattttactgaatttcgcgagtgttaggtttgattgtttatttgtactgcatatgaagattttgttgagt...

Basic information

species Arabidopsis thaliana
transcript AT4G29810.1
intron # 2
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|86061183|gb|DR356940.1|DR356940
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061176|gb|DR356933.1|DR356933
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061188|gb|DR356945.1|DR356945
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061178|gb|DR356935.1|DR356935
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061190|gb|DR356947.1|DR356947
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061185|gb|DR356942.1|DR356942
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061182|gb|DR356939.1|DR356939
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061177|gb|DR356934.1|DR356934
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|116419430|gb|EG462022.1|EG462022
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061189|gb|DR356946.1|DR356946
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061180|gb|DR356937.1|DR356937
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061187|gb|DR356944.1|DR356944
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061179|gb|DR356936.1|DR356936
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|86061186|gb|DR356943.1|DR356943
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|125028897|gb|EL101166.1|EL101166
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTC
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTC
EST: gi|86061181|gb|DR356938.1|DR356938
EST:     GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
genomic: GTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTTGGAT
EST: gi|124799448|gb|EH889127.1|EH889127
EST:     TTCTCAATTGGAGCCNGAAGTC                         CTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTT
genomic: TTCTCAATTGGAGCCTGAAGTCgtaagtcttt ... tgtgtttcagCTGTCTCCAATTAAGCCAGCTGATGATCAGCTGAGCTTGTCGGATTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACTCAAAGCGGTACGTTTAAGGATGGAGATCTACGTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTCgtaagtctttcctcttcctcgttcggtgctgattttactgaatttcgcgagtgttaggtttgattgtttatttgtactgcatatgaagattttgttgagt

- - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcctcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcgttcg