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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtacctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag

Basic information

species Arabidopsis thaliana
transcript AT3G01150.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os08g33830.1 (Oryza sativa), 5'ss of exon 9
AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttg-agatgtgtacctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
|||| | || ||| ||||  ||||||| |||||||| ||||| || || |||||||||||||  || ||||||||||||||||||||||| ||||| |||||| | | |||   ||     | || | ||   ||  ||   ||  | | |  |  |  |   |     |    |  |||| | | |||   ||   ||                                                                        
AGCAGTTGCTAAACAAGCTTTGGAAGGGCACTGCATATATGATGGAGGTTACTGTAAGCTTCATCTGTCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaatgatagtttcaggctgtgtaaattaataaatattgaagtacatatatcagttgactaattgttgactaatgaatagtgaatgtaactcattta-----------------------------------------------------------------------

upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os03g25980.1 (Oryza sativa), 5'ss of exon 9
AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtacctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
  || | || || |||||| ||||||| || ||||| || || ||||||||||||||||| |  || ||||| ||||||||||||||||| ||||| |||||| |  || | ||    || |||     |||||        |  ||||   | |    |  |     || |  |   || |   |  |||| |  | |  |  |   |  |      ||| | || ||     ||  || |   |   | ||| |              
TTCAGTTGCGAAGGAAGCATTGGAAGGGCATTGCATCTACGATGGTGGCTACTGTAAGCTCCACCTGTCATATTCTCGTCATACTGATCTCAATGTAAAGgtataataggtgtgcattttcttta----gtgtattatgggcatgaaacctgtttagacgatatgatttactgccatcataga--acccttcatcttgtattcaagcacagactttcctatcatatgaattatgaaccatgtatctgtctgttctttcag----------

upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G082174_T03 (Zea mays), 5'ss of exon 10
AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtac-ctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
|||  | || ||| ||||  |||| ||||||||||| ||||| ||||| |||||||||||||  || ||||||||||||||||||||||| ||||| |||||| | |       | |   ||||| | ||||||   ||  ||| ||   || | |     |   || |   ||| | |||  || || || ||          || || | |  ||||                                                    
AGCCGTTGCTAAACAAGCTTTGGAGGGACACTGCATATATGATGGTGGTTACTGTAAGCTTCATCTGTCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaa-------tagtagttttgggctgtgtaaattagcaaataatttaagtatatactgttcaggac--taatg-aataacgaattctgct----------caattagtaaaaaaag---------------------------------------------------

upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G082174_T05 (Zea mays), 5'ss of exon 7
-------------AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtac-ctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
             |||  | || ||| ||||  |||| ||||||||||| ||||| ||||| |||||||||||||  || ||||||||||||||||||||||| ||||| |||||| | |       | |   ||||| | ||||||   ||  ||| ||   || | |                                                                                                                   
ATATAACTACCGCAGCCGTTGCTAAACAAGCTTTGGAGGGACACTGCATATATGATGGTGGTTACTgtaagcttcatctgtcatactctcgtcatactgatctcaatgtaaaggtataaa-------tagtagttttgggctgtgtaaattagcaaataatttaagtatatac---------------------------------------------------------------------------------------------------------------

upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G178169_T01 (Zea mays), 5'ss of exon 9
AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtacctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
|||  | || ||| ||||  |||| ||||||||||| ||||| ||||| |||||||||||||  || ||||||||||||||||||||||| ||||| |||||| | |       |||   |||   | ||||||    ||  |  ||| |||| | ||   |     || ||    || |     ||  |   ||||  ||   | || | |  |||                                                     
AGCCGTTGCTAAACAAGCTTTGGAGGGACACTGCATATATGATGGTGGTTACTGTAAGCTTCATCTGTCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaa-------ttgtagtttcaggttgtgta----aattagcaaataatt-taagtatat----atcgttcaagactgataaataatgaattctgctc---acttagtaaaaaaga---------------------------------------------------

upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM5G883601_T02 (Zea mays), 5'ss of exon 9
-------------AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtacctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
              ||  | || || |||||| ||||||| || ||||| || || || ||||||||||||||||  || |||||||| |||||||||||||||||||| |||||| |  || |   ||  || |||     || | | |     | |||||  || |                                                                                                                   
ATGTAAATACTGCCGCTGTAGCGAAGGAAGCATTGGAAGGGCATTGCATCTACGATGGCGGCTACTgtaagcttcacctgtcatactcccgtcatactgatctgaatgtgaaggtataataggtgcatt--ttgttta----gtattctttgctcataaaacccttctagat---------------------------------------------------------------------------------------------------------------

upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM5G883601_T01 (Zea mays), 5'ss of exon 9
AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtacctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttc--tacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
 ||  | || || |||||| ||||||| || ||||| || || || ||||||||||||||||  || |||||||| |||||||||||||||||||| |||||| |  || |   ||  || |||   ||   |  || | ||||          |||     | |      | ||  ||       |  |  |       |   |||    | |      | ||  |   |||   | ||||   | |  || || | |             
CGCTGTAGCGAAGGAAGCATTGGAAGGGCATTGCATCTACGATGGCGGCTACTGTAAGCTTCACCTGTCATACTCCCGTCATACTGATCTGAATGTGAAGgtataataggtgcatt--ttgtttagtattctttgctcataaaacccttctagatgatacatatacccctttcacaaaaccctcagttatagtacaggaacaggacaccctgtattgttttttttgacatacga--agttatgccccttcatatttcag-------------

upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA11G21330.1 (Glycine max), 5'ss of exon 9
AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtacctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
| ||   |||||| |||| ||    || || ||||| ||||| |||||||  ||||||||||| ||||||||||||| |||||||||| | || || |||||| |    |||  |    ||  ||||      |  | | ||||     |       |||||  |||||  ||     ||    | ||    |||  ||  |        |||  |||||||                                                
AACAGCTGCCAAAAAAGCTCTAATGGGGCATTGCATATATGATGGTGGCTGTTGTAAGCTTCGTCTATCATACTCTCATCATACTGATATTAACGTAAAGgtata---aattcatc---ttgatgagggaataatatgagaaaagggggag------ggggattagaattatacttatatgcaatgtgaaaattttcttgat--------cag--aaatatt------------------------------------------------

upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv14s0108g01030.t01 (Vitis vinifera), 5'ss of exon 9
AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtacctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
|||| | ||||||||||| || || ||||||||||| ||||| |||||||| ||||||||||  |||||||||||||||||||||||||| ||||| |||||| | |        ||   ||||||    | | | | | |||||||       | || ||   | ||  ||||  |  || | ||             ||      ||| |  ||                                                      
AGCAGTTGCCAAAGAAGCTCTAGAGGGACACTGCATATATGATGGTGGCTATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaa--------tgtgattttgattaatattcatgagaaaaaaa-------taagaggggaaaaaatgtaa-agtcttccttagaagaaaagtggatccgttgatcgaaaaaa------------------------------------------------------

upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S81_184V6.1 (Physcomitrella patens), 5'ss of exon 9
------AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtacctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
      ||     || || || ||||| ||||| ||||||||||| || || |||| ||| |||||||  ||||| |||||||| ||||||||| | ||||| |||| ||        | |||  | ||||      |  | |  |  |  |    | | || ||| |  |  | |  |||  || ||  | ||      || |                                                                        
TACTGCAGTTGGAGCAAAGGAGGCACTTGAAGGTCACTGCATTTACGATGGAGGCTTCTGCAAGCTTCACCTATCTTACTCTCGGCATACTGATTTAAATgtaaaggcactct--ccctcttgtatgtttgtcgcccgcccatgcatgatgacttcactatgtgggcaccatcaaaaaaac--aagtgtttctggcatcgtcat------------------------------------------------------------------------

upper sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S326_1V6.1 (Physcomitrella patens), 5'ss of exon 9
------AGCAATGGCCAAAGAAGCACTGGAAGGACACTGCATTTATGACGGTGGCTACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataagatttgttgcttttttgagatgtgtacctaaaaaaaaaaacaattgtgaggggaagagaatagtaacggaattgcgtatgcttctttcttttctacatttcgcagcaaaatattaaatcaacgtctaattatcttcttcaattttcctgtgattgaatgaag
      ||     || ||||||||||| ||||| ||||||||||| || || || | ||| |||||||  |||||||||||||| ||||||||| | ||||| ||||||  |     || |||    ||||   ||    || |   |  |  ||     |  | |||    |     ||   ||| |  | ||      || |                                                                        
TACTGCAGTTGGAGCAAAAGAAGCACTCGAAGGTCACTGCATTTACGATGGCGGTTTCTGCAAGCTTCATCTATCATACTCTCGGCATACTGATTTAAATgtaaaggta--ttctccttcttgtaggtttgt--tgctagcccatgcatgatgacttcactatgtggacagcatctaaaattaaatcgtctctgacctaatcat------------------------------------------------------------------------

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|86075312|gb|DR371069.1|DR371069
EST:     ACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAG                         GCTTTTAGCGACAAAAGCAGAGACTATACACTTCCTGATCTAAGCCTACTT
genomic: ACTGTAAGCTTCGACTATCATACTCTCGTCATACTGATCTGAATGTTAAGgtacataaga ... ttgaatgaagGCTTTTAGCGACAAAAGCAGAGACTATACACTTCCTGATCTAAGCCTACTT