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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtggttttcgattgttgaaatacttgtagtatgaagttctacaagtttgattgtcgttggtactcacatgattttatatgactttatgtactgttttagGATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGTTTGAGGGAGGTAGACATTAAAAAGTACATCAAGGTTGAGAAAGTTCCTG

Basic information

species Arabidopsis thaliana
transcript AT5G26360.1
intron # 8
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|124711126|gb|EH802528.1|EH802528
EST:     ATCTTATTGCG                         GATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGT
genomic: ATCTTATTGCGgtaagtaccg ... actgttttagGATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGT
EST: gi|86058165|gb|DR353922.1|DR353922
EST:     AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCG                         GATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGT
genomic: AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCGgtaagtaccg ... actgttttagGATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGT
EST: gi|125151347|gb|EL183524.1|EL183524
EST:     AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCG                         GATTTGGCTATTGATGCCACTA
genomic: AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCGgtaagtaccg ... actgttttagGATTTGGCTATTGATGCCACTA
EST: gi|125318471|gb|EL332556.1|EL332556
EST:     AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCG                         GATTTGGCTATTGGTGCCACTACTA
genomic: AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCGgtaagtaccg ... actgttttagGATTTGGCTATTGATGCCACTACTA
EST: gi|86058166|gb|DR353923.1|DR353923
EST:     AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCG                         GATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGT
genomic: AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCGgtaagtaccg ... actgttttagGATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGT
EST: gi|47830309|gb|CK119993.1|CK119993
EST:     AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCG                         GATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGT
genomic: AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCGgtaagtaccg ... actgttttagGATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGT
EST: gi|164132439|gb|EL986140.1|EL986140
EST:     AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCG                         GATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATC
genomic: AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCGgtaagtaccg ... actgttttagGATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATC
EST: gi|86074173|gb|DR369930.1|DR369930
EST:     AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCG                         GATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGT
genomic: AGAGCTGCATAGGGACAAAGTTCACTAGCCAATTTGGAGATCTTATTGCGgtaagtaccg ... actgttttagGATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgattgtcgttggtactcacatgattttatatgactttatgtactgttttagGATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGTTTGAGGGAGGTAGACATTAAAAAGTACATCAAGGTTGAGAAAGTTCCTG
                tactcac  putative branch site (score: 1)
                                              ctgtttt  putative PPT
                          attttatatgacttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtggttttcgattgttgaaatacttgtagtatgaagttctacaagtttgattgtcgttggtactcacatgattttatatgactttatgtactgttttagGATTTGGCTATTGATGCCACTACTACTGTTGGTGTTGATCTTGGACAAGGTTTGAGGGAGGTAGACATTAAAAAGTACATCAAGGTTGAGAAAGTTCCTG

- - - - - - - - -gaaatac
- - - - - - - - - - - - - - - - - - - - - - agtttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actcaca