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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacactttatacactacattaatttacatcgctaatttattcttgaacattctgactcaaacagagtgtttgactttgattttgacttatgaagtcataacatggcttttctgttttttttttcctttataaaaataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTTAAG

Basic information

species Arabidopsis thaliana
transcript AT5G14740.4
intron # 6
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|125288641|gb|EL302726.1|EL302726
EST:     ATGCCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCTTTTTGACAAG                         GTCAAATATGCAGGAGTTGGAGCCGCCATTGAAT
genomic: ATGCCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAAT
EST: gi|124891157|gb|EH970059.1|EH970059
EST:     TATGGTTCCTCCTTTTGACAAG                         GTCAAATACGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
genomic: TATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
EST: gi|124828477|gb|EH913343.1|EH913343
EST:     TGCCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAG                         GTCAAATATGCAGGAGTTGGAGCCG
genomic: TGCCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCG
EST: gi|47828530|gb|CK118214.1|CK118214
EST:     ATGCCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAG                         GTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
genomic: ATGCCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
EST: gi|124999488|gb|EL071757.1|EL071757
EST:     TCCTCCTTTTGACAAG                         GTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
genomic: TCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
EST: gi|125088794|gb|EL147402.1|EL147402
EST:     TATGGTTCCTCCTTTTGACAGG                         GTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCA
genomic: TATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCA
EST: gi|124840934|gb|EH925373.1|EH925373
EST:     ATGCCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAG                         GTCAAACATGCAGGAGTTGGAGCCGCCA
genomic: ATGCCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCA
EST: gi|125054305|gb|EL125080.1|EL125080
EST:     ATGCCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAG                         GTCAAATATGCAGG
genomic: ATGCCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGG
EST: gi|125180860|gb|EL197523.1|EL197523
EST:     CGCCAATATGGTTCCTCCTTTTGACAAG                         GTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGT
genomic: CGCCAATATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGT
EST: gi|124762888|gb|EH853018.1|EH853018
EST:     CCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAG                         GTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
genomic: CCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
EST: gi|125263149|gb|EL277234.1|EL277234
EST:     TCCTTTTGACAAG                         GTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
genomic: TCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
EST: gi|125002035|gb|EL074304.1|EL074304
EST:     CCTTTTGTCAAG                         GTCAAATATGCAGGAGTTGGAG-CGCCATTGAATACGCTGTCTTGCACCTT
genomic: CCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
EST: gi|125210211|gb|EL225165.1|EL225165
EST:     CCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAG                         GTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
genomic: CCTTCGTGGTTCGTAATATCGCCAATATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
EST: gi|124962464|gb|EL036886.1|EL036886
EST:     CCAATATGGTTCCTCCTTTTGACAAG                         GTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT
genomic: CCAATATGGTTCCTCCTTTTGACAAGgtaaacactt ... ataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagtcataacatggcttttctgttttttttttcctttataaaaataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTTAAG
     tcataac  putative branch site (score: 2)
                 ttttctgttttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaacactttatacactacattaatttacatcgctaatttattcttgaacattctgactcaaacagagtgtttgactttgattttgacttatgaagtcataacatggcttttctgttttttttttcctttataaaaataattacagGTCAAATATGCAGGAGTTGGAGCCGCCATTGAATACGCTGTCTTGCACCTTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG