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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGACTCTGTCAAATGTGAAGTTGTTGATGGTGGAGAACTTAAGTCAAGGAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattttctgtttaccctctttttcactttttcttgttgctttggttgaagtgttgcatatttaagtctgaaagatcttactctgatgcttattttttgtaattattttcttgccgcag

Basic information

species Arabidopsis thaliana
transcript AT5G52920.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 5'ss of exon 4
AAAGACTCTGTCAAATGTGAAGTTGTTGATGGTGGAGAACTTAAGTCAAGGAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattttctgtttaccctctttttcactttttcttgttgctttggttgaagtgttgcatatttaagtctgaaagatcttactctgatgcttattttttgtaattattttcttgccgcag
 |||| || || |||||||||||| ||||||| || ||||| || || ||| | ||||||||||| || |||||||| ||||| || || ||||| ||||||   |||  ||     |  |  ||       | || |     || | |||  | | |    | | | |   || |                                               
GAAGATTCGGTAAAATGTGAAGTTATTGATGGAGGTGAACTGAAATCCAGGCGTCACCTGAATGTTCGTGGAAAGAGCGCAACCTTGCCATCAATAACTGgt---aatagtcaac--attcatttcactgaatattataaacactcttgtttcattctcattt-tctgaacttgcag----------------------------------------------

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G152686_T01 (Zea mays), 5'ss of exon 4
AAAGACTCTGTCAAATGTGAAGTTGTTGATGGTGGAGAACTTAAGTCAAGGAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattttctgtttaccctctttttcactttttcttgttgctttggttgaagtgttgcatatttaagtctgaaagatcttactctgatgcttattttttgtaattattttcttgccgcag
 |||| ||||| |||||||||||| |||| ||||| ||| | || || ||| | || |||||||| || |||||||||||||| || || ||||| ||||||   | |   |   ||    |  | |  |||   |||  |   | |        |||| ||||   | || | |||  |                                           
GAAGATTCTGTGAAATGTGAAGTTATTGACGGTGGTGAATTGAAATCTAGGCGCCATCTGAATGTTCGTGGAAAGAGTGCAACCTTGCCATCAATAACTGgtaatagtcggcaactt--ttttctgtctactggatctaatctatatatcct---tgtttcatac--acgtttcaaatgtacag---------------------------------------

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G37210.1 (Glycine max), 5'ss of exon 4
AAAGACTCTGTCAAATGTGAAGTTGTTGATGGTGGAGAACTTAAGTCAAGGAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattttc-tgtttaccctctttttcactttttcttgttgctttggttgaagtgttgcatatttaagtctgaaagatcttactctgatgcttatttt----ttgtaattattttcttgccgcag--------------------------------
 | || ||||| |||||||||||||||||||| ||||| || ||||||||||||||  |||||||  ||||||| ||||||||  | ||||| |||||||||| || |     |  |||      | || | | |||||| |    || ||  |  | ||  | ||     ||   |   |      ||||    |   |     ||    || | ||  |  | ||                                 
GAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGAGACATTTGAATGTTAGAGGAAAAAGTGCAACACTTCCTTCCATCACTGgttagattccggattattatttctatcttgattatttcttttaatgtttgtccatttcttctacatgcctctccatatatttgggtactgacaactgggtgagggttaaggttttgttggtttcccaaggacatataatatttgtgttgatttgctacag

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 4
AAAGACTCTGTCAAATGTGAAGTTGTTGATGGTGGAGAACTTAAGTCAAGGAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaatttt--ctgtttaccctctttttcactttttcttgttgctttggttgaagtgttgcat-atttaagtctgaaagatcttactctgatgcttattttttgtaattattttcttgccgcag----------------------
 | || ||||| |||||||||||||||||||| ||||| || ||||||||| ||||  |||| ||  ||||||| ||||||||  |||||||||||||||||  |||||     | |  | ||   | || ||  |    |  ||  |   |    ||||  | | | ||  ||  ||  |   || ||| |    | || || ||    | |  | | | |  |                       
GAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGCGACATTTGAACGTTAGAGGAAAAAGTGCAACACTACCTTCAATCACTGgtcagaattcagattatgaatcccaatcttgacaatgctctagtgtctatttctttgtgtgccttgagttgcgtgggagggtagttgctcagg-attgatgttatggtggtttcctatggacataatattcacattaatttgttgcag

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G23150.1 (Glycine max), 5'ss of exon 4
AAAGACTCTGTCAAATGTGAAGTTGTTGATGGTGGAGAACTTAAGTCAAGGAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaatttt--ctgtttaccctctttttcactttttcttgttgctttggttgaagtgt-tgcatatttaagtctgaaagatcttactctgatgcttattttttgtaattattttcttgccgcag----------------------
|| || ||||| |||||||||||||||||||| ||||| || ||||||||| ||||  |||| ||  ||||||| ||||||||| | |||||||||||||||  |||||     | || | ||   | || ||  |    || ||  |   |    ||||     || ||  ||  ||  |   || ||| |    | || || ||      |  | | | |  |                       
AAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGCGACATTTGAACGTTAGAGGAAAAAGTGCAACTCTGCCTTCAATCACTGgtcagaattcagattattgatcccaatcttgacgatgctctggtgtctatttctttgtgtgcctctagttgtgtgggagggtagttgctcagg-attgatgttatggtggcttcctatggacataatattcacattaatttgttgcag

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G30430.1 (Glycine max), 5'ss of exon 4
AAAGACTCTGTCAAATGTGAAGTTGTTGATGGTGGAGAACTTAAGTCAAGGAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattttc-tgtttaccctctttttcactttttcttgttgctttggttgaagtgttgcatatttaagtctgaaagatcttactctg----atgcttattttttgtaattattttcttgccgcag--------------------------------
 | || ||||| |||||||||||||||||||| ||||| || ||||||||||||||  |||||||  ||||||| ||||||||  | ||||| || ||||||| || | |   |  |||  |   |  |   || || || |   |||     |  | ||  | ||     ||   | | |      |||    |||  |     ||    || | ||  |  | ||                                 
GAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGAGACATTTGAATGTTAGAGGAAAAAGTGCAACACTGCCTTCCATAACTGgttagattctggatcattattcctatacttgattgtttttttaattttaaaccatttcttctacatgcctctccatatgtttgggtactggcaaatgggtgaggattaaggttttgttggtttcccaaggacatataatatttgtgttgatttgctacag

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 4
AAAGACTCTGTCAAATGTGAAGTTGTTGATGGTGGAGAACTTAAGTCAAGGAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattttctgtttaccctctttttcactttttcttgttgctttggttgaagtgttgcatatttaagtctgaaagatcttactctgatgcttattttttgtaattattttcttgccgcag
  ||| || || ||||||||||||||||||||||||||||| ||||| || || || || ||||| |||||||| ||||||||  | || ||||| ||||||| | |  |    |    || |  | |   || |      ||||||| ||       ||||  |  || |    || |  || || ||      ||||  || |                  
GGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgtt-ggacatggaatgagtccccaatgt---ttatagcaaatgctttgttt-------tgcaattcaaaat----aacaatttgctttg------atttgctgcag-----------------

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|125238121|gb|EL252206.1|EL252206
EST:     GAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTG                         AGAAGGACTGGGAGGATATTAAATTTGGAGT
genomic: GAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattt ... cttgccgcagAGAAGGACTGGGAGGATATTAAATTTGGAGT
EST: gi|116479876|gb|EG522468.1|EG522468
EST:     GAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTG                         AGAAGGACTGGGAGGATATTAAATTTGGAGTGGAGAACAAAGTTGACTTTT
genomic: GAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattt ... cttgccgcagAGAAGGACTGGGAGGATATTAAATTTGGAGTGGAGAACAAAGTTGACTTTT
EST: gi|124996516|gb|EL068785.1|EL068785
EST:     AGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTG                         AGAAGGACTGGGA
genomic: AGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattt ... cttgccgcagAGAAGGACTGGGA
EST: gi|86057128|gb|DR352885.1|DR352885
EST:     GAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTG                         AGAAGGATTGGGAGGATATTAAATTTGGAGTGGAGAACAAAGTTGACTTTT
genomic: GAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattt ... cttgccgcagAGAAGGACTGGGAGGATATTAAATTTGGAGTGGAGAACAAAGTTGACTTTT
EST: gi|124949637|gb|EL025202.1|EL025202
EST:     CACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTG                         AGAAGGACTGGGAGGATATTAAATTTGGAG
genomic: CACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattt ... cttgccgcagAGAAGGACTGGGAGGATATTAAATTTGGAG