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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATAGTTCAGGCGCCATTAGGACCAGATATCTCCGGACCAGAGCTTGTAGCCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgcaactttttcgttttctttgatttttgtttatagatatattgaattatgtgaatcaatgaatcag

Basic information

species Arabidopsis thaliana
transcript AT5G64250.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G64250.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S226_16V6.1 (Physcomitrella patens), 5'ss of exon 2
GATAGTTCAGGCGCCATTAGGACCAGATATCTCCGGACCAGAGCTTGTAGCCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgcaactttttcgttttctttg-atttttgtttatagatatattgaattatgtgaatcaatgaatcag---------------------------------------------------------------------------------------------
 || || || || ||  | ||||| ||||||||||| || |||||||| |||||||| || |||||||||||  | ||  ||||| |   |||   |  |||    |||  |  | || |  |   ||  |   |    |||| |    || ||| |||   |   |  ||  |                                                                                             
AATTGTGCAAGCACCCATGGGACCTGATATCTCCGGCCCGGAGCTTGTGGCCGCCGTTGCCAATGCAGGAGGTCTCGGCATTCTCCGCGCTCCATCTCAGgtctcatgcttccgtctcatactgggtgtgtaagtaccaatagtttatgtgcattttgtatttagttccatgtgtgtagatattttgcctgattgttttcgattctggtggctcaagtttcgattatcgttggaaatgaaggattgataattctcggttgcttgcag

upper sequence: AT5G64250.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S226_16V6.3 (Physcomitrella patens), 5'ss of exon 1
GATAGTTCAGGCGCCATTAGGACCAGATATCTCCGGACCAGAGCTTGTAGCCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgcaactttttcgttttctttg-atttttgtttatagatatattgaattatgtgaatcaatgaatcag---------------------------------------------------------------------------------------------
                         ||||||||||| || |||||||| |||||||| || |||||||||||  | ||  ||||| |   |||   |  |||    |||  |  | || |  |   ||  |   |    |||| |    || ||| |||   |   |  ||  |                                                                                             
-------------------------GATATCTCCGGCCCGGAGCTTGTGGCCGCCGTTGCCAATGCAGGAGGTCTCGGCATTCTCCGCGCTCCATCTCAGGTCTCATGCTTCCGTCTCATACTGGgtgtgtaagtaccaatagtttatgtgcattttgtatttagttccatgtgtgtagatattttgcctgattgttttcgattctggtggctcaagtttcgattatcgttggaaatgaaggattgataattctcggttgcttgcag
















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|116453508|gb|EG496100.1|EG496100
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|116453507|gb|EG496099.1|EG496099
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|116453517|gb|EG496109.1|EG496109
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|116453516|gb|EG496108.1|EG496108
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|86039417|gb|DR335172.1|DR335172
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|116453501|gb|EG496093.1|EG496093
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|116453499|gb|EG496091.1|EG496091
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|86039418|gb|DR335173.1|DR335173
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|86039416|gb|DR335171.1|DR335171
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|86039415|gb|DR335170.1|DR335170
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTSCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|86039419|gb|DR335174.1|DR335174
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|116453500|gb|EG496092.1|EG496092
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|116453502|gb|EG496094.1|EG496094
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|125240925|gb|EL255010.1|EL255010
EST:     ATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: ATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|86039413|gb|DR335168.1|DR335168
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|86039414|gb|DR335169.1|DR335169
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAATGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|116453497|gb|EG496089.1|EG496089
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|116453503|gb|EG496095.1|EG496095
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
EST: gi|86039420|gb|DR335175.1|DR335175
EST:     CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGG                         GAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA
genomic: CCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgca ... aatgaatcagGAGTGTCCTGATTACTTGAGAGAGCTTATAAGAAAGACAAAGACATTGACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATAGTTCAGGCGCCATTAGGACCAGATATCTCCGGACCAGAGCTTGTAGCCGCCGTCGCTAATGCAGGAGGGATTGGTCTTCTCAGATGTCCTGATTGGgtaaattgcaactttttcgttttctttgatttttgtttatagatatattgaattatgtgaatcaatgaatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - -CGCCGTCG