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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGGTTTGATGGTTAATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatataagcttacatgctcgtgatcatcatccctggattgaataacaaatcgcccttttgcacatttctttag

Basic information

species Arabidopsis thaliana
transcript AT1G23310.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G23310.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: PP1S215_28V6.1 (Physcomitrella patens), 5'ss of exon 10
ATGGGTTTGATGGTTAATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatataagcttacatgctcgtgatcatcatccctggattgaataacaaatcgcccttttgcacatttctttag-------------------------
|||||||||||||| | ||||||||| || ||||||||||| |||   | || |      ||||||||    | | ||  ||  |  |    ||   |     | || |   |    | ||  |  ||||    | ||  |                           
ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTGTACAAGGCAGAAAGgtacccgt-tcagtctatgtaattaatattggcgcagatcgagttctt--tgattctacggtttgtgtttgtcggtgaaactgagatttggtcgtatctgtca
















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|124874219|gb|EH955864.1|EH955864
EST:     CCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGA
genomic: CCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGA
EST: gi|125225261|gb|EL239346.1|EL239346
EST:     TCCTCCAAAGCCTGGAGACATTTCAATAATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTC
genomic: TCCTCCAAAGCCTGGAGACATTTCA-TA-TGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTC
EST: gi|124847314|gb|EH931751.1|EH931751
EST:     ATTCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAG
genomic: A-TCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAG
EST: gi|124710790|gb|EH802192.1|EH802192
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAG
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAG
EST: gi|125104424|gb|EL158503.1|EL158503
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTT
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTT
EST: gi|124819787|gb|EH904653.1|EH904653
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAG
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAG
EST: gi|124735985|gb|EH827387.1|EH827387
EST:     TTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
genomic: TTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
EST: gi|125120543|gb|EL168204.1|EL168204
EST:     TATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
genomic: TATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
EST: gi|124948016|gb|EL023811.1|EL023811
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGGATTCTTGAATCTTTGAGAA
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGG-ATTCTTGAATCTTTGAGAA
EST: gi|124792413|gb|EH882092.1|EH882092
EST:     ATCCTCCAAAGCCTGGAGACATTTCATATGACCAAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAAT
genomic: ATCCTCCAAAGCCTGGAGACATTTCATATGACCA-GTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAAT
EST: gi|125149311|gb|EL182537.1|EL182537
EST:     ATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTTGAGAAGAAGAGCAAGGCTCATGACAGATG
genomic: ATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTT-GAGAAGAAGAGCAAGGCTCATGACAGATG
EST: gi|86074126|gb|DR369883.1|DR369883
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
EST: gi|125275047|gb|EL289132.1|EL289132
EST:     TTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGAACAGATG
genomic: TTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGA-CAGATG
EST: gi|86074135|gb|DR369892.1|DR369892
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
EST: gi|125321534|gb|EL335619.1|EL335619
EST:     TTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
genomic: TTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
EST: gi|125302144|gb|EL316229.1|EL316229
EST:     TCCAAAGCCTGGAGACATTTCATATGTACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGA
genomic: TCCAAAGCCTGGAGACATTTCATATG-ACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGA
EST: gi|124810613|gb|EH895479.1|EH895479
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGAC
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGG-ATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGAC
EST: gi|125178606|gb|EL196951.1|EL196951
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAG
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAG
EST: gi|125250015|gb|EL264100.1|EL264100
EST:     TTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
genomic: TTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
EST: gi|124885935|gb|EH964837.1|EH964837
EST:     GACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
genomic: GACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
EST: gi|125210457|gb|EL225411.1|EL225411
EST:     TATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
genomic: TATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
EST: gi|125194550|gb|EL209504.1|EL209504
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAG
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAG
EST: gi|124979100|gb|EL052195.1|EL052195
EST:     TTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
genomic: TTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGG
EST: gi|124948592|gb|EL024328.1|EL024328
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAG
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAG
EST: gi|125199814|gb|EL214768.1|EL214768
EST:     AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAG                         CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCA
genomic: AATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatat ... atttctttagCAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGGGTTTGATGGTTAATCCTCCAAAGCCTGGAGACATTTCATATGACCAGTTCGCCCGTGAAAGgtatatatataagcttacatgctcgtgatcatcatccctggattgaataacaaatcgcccttttgcacatttctttag

- - - - - - - - - - - - - -  TGGAGA