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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaatttcttcttcttcttccttttcttactaaattctcttaggtagttgtcgattcgatttctttgtcttcctcttcgcttattttcgttgaatctcttgtttacaccttttcctgaaaacaaaattgtgttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTTCAG

Basic information

species Arabidopsis thaliana
transcript AT4G35450.1
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|86041554|gb|DR337309.1|DR337309
EST:     CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGG                         GGTTTTAGTCATATTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
genomic: CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|86041565|gb|DR337320.1|DR337320
EST:     CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGG                         GGTTTTAGTCATATTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
genomic: CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|124712344|gb|EH803746.1|EH803746
EST:     CACAACATTGTCTTTTCGG                         GGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
genomic: CACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|86041562|gb|DR337317.1|DR337317
EST:     CTGTATTTCAAGTTTCATGAGSGTTTGCCACCAMAACATTGTCTTTTCGG                         GGTTTTAGTCATATTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
genomic: CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|86041557|gb|DR337312.1|DR337312
EST:     CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGG                         GGTTTTAGTCATATTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
genomic: CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|86041567|gb|DR337322.1|DR337322
EST:     CTGTATTTCAAGTTTCATGAGSGTTTGCCACCACAACATTGTCTTTTCGG                         GGTTTTAGTCATATTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
genomic: CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|125323919|gb|EL337999.1|EL337999
EST:     CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGG                         GGTTTTAGTCATACTTAATGGCTTCCAA
genomic: CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAA
EST: gi|86041568|gb|DR337323.1|DR337323
EST:     CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGG                         GGTTTTAGTCATATTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
genomic: CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|86041563|gb|DR337318.1|DR337318
EST:     ATTGTCTTTTCGG                         GGTTTTAGTCATATTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
genomic: ATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|124891466|gb|EH970368.1|EH970368
EST:     GCCACCACAACATTGTCTTTTCGG                         GGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAA-TCCTCTTCTTT
genomic: GCCACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|86041553|gb|DR337308.1|DR337308
EST:     CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGG                         GGTTTTAGTCATATTTAATGGCTTCMAATTCGGAGAAAAATCCTCTTCTTT
genomic: CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|124836550|gb|EH920989.1|EH920989
EST:     ACCACAACATTGTCTTTTCGG                         GGTTTTTGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
genomic: ACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
EST: gi|86041552|gb|DR337307.1|DR337307
EST:     CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGG                         GGTTTTAGTCATATTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT
genomic: CTGTATTTCAAGTTTCATGAGCGTTTGCCACCACAACATTGTCTTTTCGGgttaatttct ... ttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgttgaatctcttgtttacaccttttcctgaaaacaaaattgtgttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTTCAG
                                           tgtttttt  CT-rich tract
                                    aaaattgtgtttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaatttcttcttcttcttccttttcttactaaattctcttaggtagttgtcgattcgatttctttgtcttcctcttcgcttattttcgttgaatctcttgtttacaccttttcctgaaaacaaaattgtgttttttgtagGGTTTTAGTCATACTTAATGGCTTCCAATTCGGAGAAAAATCCTCTTCTTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA