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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTGATGGCTGTCAGGATCGTCAAGCACGCCATGGAGATTATCCACCTCTTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaaccttgtgaagtatgctgaaatagtatcattggaacaaggaacattttattcttattaatgttttgtttgttgcttgagccag

Basic information

species Arabidopsis thaliana
transcript AT3G11940.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G11940.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os11g29190.4 (Oryza sativa), 5'ss of exon 2
--------------------------AATTGATGGCTGTCAGGATCGTCAAGCACGCCATGGAGATTATCCACCTCTTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgta--ctaaccttgtgaagtatgctgaaatagtatcattggaacaaggaacattttattcttattaatgttttgtttgttgcttgagccag
                          |  | ||||| ||  | ||||||||||||||||||||||| ||||||||| |  | |||   ||||| |||||||||||| | ||||||||  ||||||||||  |   ||||  |   |  |||     | | || || |||| || || ||||||     |||  ||||                    
GATGCACGGCCGCAACAACGGGAAGAAGATCATGGCCGTGCGCATCGTCAAGCACGCCATGGAGATCATCCACCTCCTCACCGACGCCAACCCCATTCAGgtcatcgtcgacgccatcatcaacaggtaaccccccctttcgcgcttcgctcgcccaatctctttcgaaccagtaaaattttaccgggatt--tgttagaac---------------

upper sequence: AT3G11940.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os11g29190.5 (Oryza sativa), 5'ss of exon 2
-----------------------------------------AATTGATGGCTGTCAGGATCGTCAAGCACGCCATGGAGATTATCCACCTCTTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgta--ctaaccttgtgaagtatgctgaaatagtatcattggaacaaggaacattttattcttattaatgttttgtttgttgcttgagccag
                                         |  | ||||| ||  | ||||||||||||||||||||||| ||||||||| |  | |||   ||||| |||||||||||| | ||||||||  ||||||||||  |   ||||  |   |  |||     | | || || |||| || || ||||||                                  
GACCAACTCGCTCATGATGCACGGCCGCAACAACGGGAAGAAGATCATGGCCGTGCGCATCGTCAAGCACGCCATGGAGATCATCCACCTCCTCACCGACgccaaccccattcaggtcatcgtcgacgccatcatcaacaggtaaccccccctttcgcgcttcgctcgcccaatctctttcgaaccagtaaaattttacc--------------------------------

upper sequence: AT3G11940.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os11g29190.1 (Oryza sativa), 5'ss of exon 2
AATTGATGGCTGTCAGGATCGTCAAGCACGCCATGGAGATTATCCACCTCTTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgta--ctaaccttgtgaagtatgctgaaatagtatcattggaacaaggaacattttatt----cttattaatgttttgtttgttgcttgagccag-----
|  | ||||| ||  | ||||||||||||||||||||||| ||||||||| |  | |||   ||||| |||||||||||| | ||||||||  ||||||||||  |   ||||  |   |  |||     | | || || |||| || || ||||||       || |||           |    || | |        
AGATCATGGCCGTGCGCATCGTCAAGCACGCCATGGAGATCATCCACCTCCTCACCGACGCCAACCCCATTCAGGTCATCGTCGACGCCATCATCAACAGgtaaccccccctttcgcgcttcgctcgcccaatctctttcgaaccagtaaaattttaccgggatttgttagaacaccacacgagaatttatctgagaata

upper sequence: AT3G11940.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g01060.1 (Oryza sativa), 5'ss of exon 2
AATTGATGGCTGTCAGGATCGTCAAGCACGCCATGGAGATTATCCACCTCTTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct----tgtgaagtatgctgaaatagtatcattggaacaaggaa--cattttattcttattaatgttttgtttgttgcttgagccag-----
|  | ||||||||| | ||||||||||||||||||||||| ||||||||| |  | |||   ||||| || ||||||||| | || |||||  ||||||||||| | | |    |    | |    |  | | |     ||  |      ||  || ||| || | | | |   |     | ||   ||     |     
AGATCATGGCTGTCCGCATCGTCAAGCACGCCATGGAGATCATCCACCTCCTCACCGACGCCAACCCCATCCAGGTCATCGTAGATGCCATCATCAACAGgtaccaccgtccaattcccaattcctttcagttgcgcacttcaattgtccaattcacttttttttcaatcaccctcaccctcttatatgcaaatgcttat

upper sequence: AT3G11940.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S101_208V6.1 (Physcomitrella patens), 5'ss of exon 2
AATTGATGGCTGTCAGGATCGTCAAGCACGCCATGGAGATTATCCACCTCTTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaaccttgtgaagtatgctgaaatagtat------cattggaacaaggaacattttattcttattaatgttttgtttgttgcttgagccag------------------------------------------------------
| |||||||||||  | ||||| |||||||| ||||||||||| |||||  || | |||  |||||| || ||||||||| | ||||||||  |||||||||      ||   |||||    |||  | | |       | || |||          | | |   |  | | | |  |   | |  ||  ||                                                         
AGTTGATGGCTGTACGCATCGTGAAGCACGCGATGGAGATTATTCACCTACTGACCGACCAGAACCCTATCCAGGTCATCGTCGACGCCATCATCAACAGgtgg-gttctctcgaagttccatgaggtggcacgggagacgtttgaatgcttgggcgtgtgtgtgttgtgaagctgggaaaggtttttaggcattatttggtataatgccagggttttaaagtaagagggagtcatggtgtgagtgcag

upper sequence: AT3G11940.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S10_385V6.1 (Physcomitrella patens), 5'ss of exon 2
AATTGATGGCTGTCAGGATCGTCAAGCACGCCATGGAGATTATCCACCTCTTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaaccttgtgaagtatgctgaaatagtatcattggaacaaggaacattttattcttattaatgttttgtttgttgcttgagccag----------------------
| |||||||||||| | || || ||||||||||||||||||||||| ||| || |||||  |||||| |||||||||||| | || || ||| ||||||||| |  ||    |   || || | |   |  ||| |  | |||     | |||| |  |||   ||  |   |||||  || |||| |                       
AGTTGATGGCTGTCCGCATTGTGAAGCACGCCATGGAGATTATCCATCTCCTGACTGACCAGAACCCCATTCAGGTCATCGTCGATGCTATTATCAACAGgttcggacgcaatcccgtgtgat-atcgaacatcctgaggacacaattctttttctgattaaatattgtcaatttgtctct-gagcgacagtgttttcccatacattgcag

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|301502573|gb|HO208113.1|HO208113
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|86084216|gb|DR379975.1|DR379975
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|124798485|gb|EH888164.1|EH888164
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TAGGTCCACGTGAAGATGCTACCAGAAT
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagT-GGTCCACGTGAAGATGCTACCAGAAT
EST: gi|124967156|gb|EL041210.1|EL041210
EST:     TCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|125171600|gb|EL194376.1|EL194376
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGA
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGA
EST: gi|124944262|gb|EL020378.1|EL020378
EST:     TCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCCACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|124985489|gb|EL058076.1|EL058076
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTG
EST: gi|164222946|gb|ES058717.1|ES058717
EST:     CTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGATCCACGTGAAGATGCTACCAGAATTGGATCTGC
genomic: CTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGC
EST: gi|164210972|gb|ES183291.1|ES183291
EST:     TCATCATTGACGCCATTGTCAACAG                         TCGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGA
genomic: TCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagT-GGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGA
EST: gi|164206188|gb|ES180935.1|ES180935
EST:     TCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGG
genomic: TCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGG
EST: gi|124951991|gb|EL027305.1|EL027305
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCT
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCT
EST: gi|86081585|gb|DR377342.1|DR377342
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|164170825|gb|ES200425.1|ES200425
EST:     GGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: GGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|125175164|gb|EL195401.1|EL195401
EST:     GACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: GACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|163975221|gb|ES011379.1|ES011379
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGT
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGT
EST: gi|86078785|gb|DR374542.1|DR374542
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|116479315|gb|EG521907.1|EG521907
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|164059083|gb|ES084320.1|ES084320
EST:     CCATTGTCAACAG                         TGGTCCACGTGAAGATGC-ACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: CCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|164144719|gb|ES061988.1|ES061988
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATC
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATC
EST: gi|309381104|gb|HO850325.1|HO850325
EST:     AGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: AGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|124807531|gb|EH893935.1|EH893935
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAG
EST: gi|125257319|gb|EL271404.1|EL271404
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGA
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGA
EST: gi|125199969|gb|EL214923.1|EL214923
EST:     CTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGG
genomic: CTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGG
EST: gi|124795714|gb|EH885393.1|EH885393
EST:     GACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: GACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|116465715|gb|EG508307.1|EG508307
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|125279476|gb|EL293561.1|EL293561
EST:     TCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|125099445|gb|EL155252.1|EL155252
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGC
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGC
EST: gi|125276356|gb|EL290441.1|EL290441
EST:     ATTGACGCCATTGTCGACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: ATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|164215093|gb|EL970217.1|EL970217
EST:     GAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: GAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|116480566|gb|EG523158.1|EG523158
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|164222535|gb|ES214630.1|ES214630
EST:     GAACCC-ATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: GAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|86074460|gb|DR370217.1|DR370217
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|125287681|gb|EL301766.1|EL301766
EST:     AACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
genomic: AACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAGATGCTACCAGAATTGGATCTGCTGGTGTTGTTAGGAG
EST: gi|124956908|gb|EL031787.1|EL031787
EST:     TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAG                         TGGTCCACGTGAAG
genomic: TTGTCTGACTTGAACCCAATTCAGGTCATCATTGACGCCATTGTCAACAGgtactaacct ... cttgagccagTGGTCCACGTGAAG