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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTCGGAGATGAAGGAGGGTTTGCGCCGAATGTTCAAGATAACAGAGAGGGACTAGTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAGgtaatcaagttctctttctttttaatgctaatacttgctaaagttgcatgtcatctgtgtttccctaaacaacttctggcagcttcggtgtcaatcttacaccactcacataatatataatttttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G74030.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G74030.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os09g20820.1 (Oryza sativa), 5'ss of exon 3
TGTCGGAGATGAAGGAGGGTTTGCGCCGAATGTTCAAGATAACAGAGAGGGACTAGTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAGgtaatcaagttctctttctttttaatgctaatacttgctaaagttgcatgtcatctgtgtttccctaaacaacttctggcagcttcggtgtcaatcttacaccactcacataatatataatttttgcag
||| ||||||||||| || ||||| || ||||||||||| |||||||| || || ||  |||| || ||||| ||||| ||||| || ||| ||||||||||   || ||  ||||  ||| |     |   || |  | ||  ||     || || | |||   |    ||||| |   |   |  |   | ||| |||  ||                         
TGTTGGAGATGAAGGTGGCTTTGCTCCTAATGTTCAAGACAACAGAGAAGGCCTTGTCTTGCTTATGGATGCCATTGAGAAGGCAGGCTACTCTGGAAAGgtctgca-gtcatcttgttttat----ttcccaccttttcaa--tgtggaccaccttttttttttttg-taacttataatactgt--gaacccatcctactgcag------------------------

upper sequence: AT1G74030.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G034848_T01 (Zea mays), 5'ss of exon 3
TGTCGGAGATGAAGGAGGGTTTGCGCCGAATGTTCAAGATAACAGAGAGGGACTAGTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAGgtaatcaagttctctttctttttaatgctaatacttgctaaagttgcatgtcatctgtgtttccctaaacaacttctggcagcttcggtgtcaatcttacaccactcacataatatataatttttgcag
|||||||||||||||||| ||||| || ||||||||||| ||||||||||| || ||  |||| || ||||| ||||| ||||| || |||||||||| |||  | |  |  |||  ||  ||         ||||| |     ||  |||  |||   |||   |    |  ||    ||  | |     ||                                    
TGTCGGAGATGAAGGAGGTTTTGCTCCTAATGTTCAAGACAACAGAGAGGGTCTTGTCTTGCTTATGGATGCCATTGAGAAGGCAGGCTACACTGGAATGgtg-tgatatcatctaactagtttcattggccacttgtt-----tgattgttctcttgattttattttgaattttaaaacaaatcctaatgcag-----------------------------------

upper sequence: AT1G74030.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G009030_T01 (Zea mays), 5'ss of exon 3
TGTCGGAGATGAAGGAGGGTTTGCGCCGAATGTTCAAGATAACAGAGAGGGACTAGTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAGgtaatcaagttctctttctttttaatgctaatacttgctaaagttgcatgtcatctgtgtttccctaaacaacttctggcagcttcggtgtcaatcttacaccactcacataatatataatttttgcag
|||||||||||||||||| ||||| || ||||||||||| ||||||||||| ||  |  |||| || ||||| ||||| ||||| || ||||||||||| ||  | |  |  |||  ||  ||         ||||| |  | |||| | || | | | || |  ||||           |       ||                                       
TGTCGGAGATGAAGGAGGTTTTGCTCCTAATGTTCAAGACAACAGAGAGGGTCTTATCTTGCTTATGGATGCCATTGAGAAGGCAGGCTACACTGGAAAAgtg-tgatatcatctaactagtttcattggccacttgtttga-ttgc-tctcttgttttttactttaaatgttaaacacaaatcctaatgcag------------------------------------

upper sequence: AT1G74030.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA18G22780.1 (Glycine max), 5'ss of exon 4
TGTCGGAGATGAAGGAGGGTTTGCGCCGAATGTTCAAGATAACAGAGAGGGACTAGTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAGgtaa-tcaagttctctttctttttaatgctaatacttgctaaagttgcatgtcatctgtgtttccctaaacaacttctg-gcagcttcggtgtcaatcttacaccactcacataatatataatttttgcag
||| |||||||||||||| ||||| || ||||||||||||||||| ||||| || ||| | ||||| ||||| ||||| ||||| ||||| ||||| |||||   | ||| | |  || ||| |  |||  ||| ||   ||| |  | |||      | |     |||| |||    | ||||                                               
TGTTGGAGATGAAGGAGGATTTGCTCCCAATGTTCAAGATAACAGGGAGGGGCTTGTTTTACTCATGGATGCCATTGACAAGGCTGGTTATACTGGCAAGgtgggtgaagctttgattatttctgttgc--ataatttgaaaattcacttgt-gctgatctggaaataaaaaacaatggtgcag-----------------------------------------------

upper sequence: AT1G74030.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA06G23080.1 (Glycine max), 5'ss of exon 3
TGTCGGAGATGAAGGAGGGTTTGCGCCGAATGTTCAAGATAACAGAGAGGGACTAGTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAGgtaa-tcaagttctctttctttttaatgctaatacttgctaaagttgcatgtcatctgtgtttccctaaacaacttctg-gcagcttcggtgtcaatcttacaccactcacataatatataatttttgcag
||| |||||||||||||| ||||| || ||||||||||||||||| ||||| || ||  | ||||| ||||| ||||| || || ||||| ||||| |||||   | | | | |  || ||| |  | |  ||| ||   | | |  | |||      | |     |||| |||    | ||||                                               
TGTTGGAGATGAAGGAGGATTTGCTCCCAATGTTCAAGATAACAGGGAGGGGCTTGTCTTACTCATGGATGCTATTGAGAAAGCTGGTTATACTGGCAAGgtgggtgatgctttgattatttctgttac--ataatttgaatattcacttgt-gctgatctggaaataaaaaacaatggcgcag-----------------------------------------------

upper sequence: AT1G74030.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA15G25390.1 (Glycine max), 5'ss of exon 4
TGTCGGAGATGAAGGAGGGTTTGCGCCGAATGTTCAAGATAACAGAGAGGGACTAGTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAGgtaa-tcaagttctctttctttttaatgctaatacttgctaaagttgcatgtcatctgtgtttccctaaacaacttctggcagcttcggtgtcaatcttacaccactcacataatatataatttttgcag
    |||||||| ||||| ||||| || ||||||||||||||||| ||||| || ||| | ||||| ||||| ||||| ||||| ||||| ||| | |||||   | ||| | |  || ||| |  |||  ||||||   | | |  | |||  |            ||| ||  |   ||||                                               
---TGGAGATGACGGAGGATTTGCTCCCAATGTTCAAGATAACAG-GAGGGTCTTGTTTTACTCATGGATGCCATTGAGAAGGCTGGTTATACTAGCAAGGTGGgtgaagctttgattatttctgttgc--atactttgaatattcacttgtgctgatctggaaataaaaaaaaatggtgcag-----------------------------------------------

upper sequence: AT1G74030.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA04G24920.1 (Glycine max), 5'ss of exon 2
TGTCGGAGATGAAGGAGGGTTTGCGCCGAATGTTCAAGATAACAGAGAGGGACTAGTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAGgtaa-tcaagttctctttctttttaatgctaatacttgctaaagttgcatgtcatctgtgtttccctaaacaacttctg-gcagcttcggtgtcaatcttacaccactcacataatatataatttttgcag
||| |||||||||||||| ||||| || | ||||||||||||||| |||||  | ||| | ||| | ||||| ||||| ||||| ||||| ||||| |||||   | ||||| |  || ||| |  |||  ||| ||   | | |  | |||      | |     |||| |||    | ||||                                               
TGTTGGAGATGAAGGAGGATTTGCTCCCAGTGTTCAAGATAACAGGGAGGGGTTTGTTTTACTCGTGGATGCCATTGAGAAGGCTGGTTATACTGGCAAGgtgggtgaagttttgattatttctgttgc--ataatttgaatattcacttgt-gctgatctggaaataaaaaacaatggtgcag-----------------------------------------------

upper sequence: AT1G74030.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv17s0000g04540.t01 (Vitis vinifera), 5'ss of exon 3
TGTCGGAGATGAAGGAGGGTTTGCGCCGAATGTTCAAGATAACAGAGAGGGACTAGTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAGgtaatcaagttctctttctttttaatgctaatacttgctaaagttgcatgtcatctgtgttt-ccctaaacaacttctggcagcttcggtgtcaatcttacaccactcacataatatataatttttgcag
||| || ||||| || || ||||| || |||||||| ||||| || |||||  | |||||||| || ||||||||||||||||| |||||||| || ||||||  |  ||| |   | || ||  | ||  | |    | |  || | ||    || |     | | ||| || |  || |||                                               
TGTTGGGGATGAGGGGGGATTTGCTCCCAATGTTCAGGATAATAGGGAGGGGTTGGTTCTGCTTATGGATGCAATTGAAAAGGCTGGTTACACAGGCAAGgtaggcgggttgttgcttttctt--ttcttttgcagtttgattttccttgcagcctttaaggactccaaataaatgatg-cag-----------------------------------------------

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|164022559|gb|ES032002.1|ES032002
EST:     GTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAG                         ATCAAAATAGGAATGGATGTTGCTGCATCAGAATTTTTCATGAAAGATG
genomic: GTTCTGCTCATAGATGCAATTGAAAAGGCCGGTTACACTGGAAAGgtaatcaagt ... atttttgcagATCAAAATAGGAATGGATGTTGCTGCATCAGAATTTTTCATGAAAGATG