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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGAAGCTTGATCTCTCTTTAATGGAACATTATGAACGGCATTGTCCTCCTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgtgctatatttgctttcttgttttgctttgatttgtgattggttcctggttacattgtcttgatattgttttgttctttgtattgatttgcgtttag

Basic information

species Arabidopsis thaliana
transcript AT1G04430.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G04430.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G067764_T02 (Zea mays), 5'ss of exon 3
GTTGAAGCTTGATCTCTCTTTAATGGAACATTATGAACGGCATTGTCCTCCTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgt-gcta-tatttgctttcttgttttgctttgatttgtgattggttcctggttacattgtcttgatattgttttgttctttgtattg-atttgcgtttag
| ||||||| ||| |     | ||||| || |||||  ||||||| ||||| || ||||| || |||||||| |||||||||||||||  ||| || |||||  ||| |  ||    |||| | |     || | | | |||       ||||   |  |  |  |    |  ||  ||  | |||| |  ||  || ||
GCTGAAGCTGGATTTAAACCTGATGGAGCACTATGAGAGGCATTGCCCTCCACCTGAAAGGCGTTTTAATTGCTTGATTCCTCCACCACATGGCTATAAGgtcactactgatttaaatcttctctcaaagtgttcttttattccaattaggttttgtacttgttttgagttcatggactgagcattgcacctgttttgag

upper sequence: AT1G04430.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G107629_T03 (Zea mays), 5'ss of exon 4
GTTGAAGCTTGATCTCTCTTTAATGGAACATTATGAACGGCATTGTCCTCCTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgtgctatatttgctttcttgttttgctttgatttgtgattggttcctggttacattgt-cttgatattgttttgttctttgtattgatttgcgtttag-----
| ||||||| ||| |     | ||||| || |||||  ||||||| ||||| || ||||| || |||||||| |||||||||||||||  ||| || ||||| |  || |    |   | || |   |  |  |||  ||   | |   ||| ||  | | ||| ||   | |   |||    |   ||        |     
GCTGAAGCTGGATTTAAACCTGATGGAGCACTATGAGAGGCATTGCCCTCCACCTGAAAGGCGTTTTAATTGCTTGATTCCTCCACCACATGGCTATAAGgt-cactactgatctaactcttct--ctcaaagtgttcttttattccaattagatcttgcatgagatatatcttcgcttgacttgagttcatagactgactat

upper sequence: AT1G04430.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G00550.1 (Glycine max), 5'ss of exon 2
GTTGAAGCTTGATCTCTCTTTAATGGAACATTATGAACGGCATTGTCCTCCTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgtgctatatttgcttt--cttgttttgctttgatttgtgattggttcctggttacattgtcttgatattgttttgttctttgtattgatttgcgtttag------------
  ||||||| ||||| ||||| |||||||| |||||  | |||||||||||| | |||||  | |||||||||||||||||||| ||  | |||||||||||     || |||     || | | || | |      | |     ||||  |||     | |  ||| | || |      |  |   |||   ||||              
ACTGAAGCTGGATCTTTCTTTGATGGAACACTATGAGAGACATTGTCCTCCTTCAGAAAGGAGATTTAATTGTTTGATTCCTCCTCCGGCAGGATACAAGgtaaagaatatgccgagactcgatgtgatcttcaacttcaacatatcctcattaatacatttgtataattttgtcaatgctaaaacaattgttgtttctatggtgtttcag

upper sequence: AT1G04430.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G32470.1 (Glycine max), 5'ss of exon 3
GTTGAAGCTTGATCTCTCTTTAATGGAACATTATGAACGGCATTGTCCTCCTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgtgctatatttgctttcttgttttgctttgatttgtgattggttcctggttacat-tgtcttgatattgt------tttgttctttgtattgatttgcgtttag
| ||||||| || || ||| | ||||| || |||||  | |||||||||||| | ||||| ||||  ||||| ||||||||||| ||||||||||||||||||  | |||||||       | ||   |||| |   |      |   | ||||| ||| ||  | | ||      |||||| ||| |||    ||||      
GATGAAGCTGGACCTGTCTGTGATGGAGCACTATGAGAGACATTGTCCTCCTGCAGAAAGGCGGTACAATTGCTTGATTCCTCCTCCATCTGGATACAAGgtgaaa-atttgctaagagtatatg---tgatcttcaacacaccctctgatacatatgtattattttagtccaacatttgttgtttctataatgttgcag----

upper sequence: AT1G04430.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA20G35120.4 (Glycine max), 5'ss of exon 3
GTTGAAGCTTGATCTCTCTTTAATGGAACATTATGAACGGCATTGTCCTCCTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgtgctatatttgctttcttgttttgctttgatttgtgattggttcctggttacattgtcttgatattgttttgttctttgtattgatttgcgtttag
| ||||||| || || ||| | ||||| || |||||| | |||||||||||| | ||||| ||||  ||||| ||||||||||| ||||| ||||||||||||  | |||||||       | ||   |||| |   ||    ||   | |||       |||| |  ||  ||| ||| |||    ||||      
GATGAAGCTGGACCTGTCTGTGATGGAGCACTATGAAAGACATTGTCCTCCTGCGGAAAGGCGGTACAATTGCTTGATTCCTCCTCCATCAGGATACAAGgtgaaa-atttgctaagagtatatg---tgatcttcaatatactctctgatac-------tgatgtaatt--gttgtttatataatgttgcag----

upper sequence: AT1G04430.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G00880.2 (Glycine max), 5'ss of exon 3
GTTGAAGCTTGATCTCTCTTTAATGGAACATTATGAACGGCATTGTCCTCCTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgtgctatatttgcttt--cttgttttgctttgatttgtgattggttcctggttacattgtcttgatattgttttgttctttgtattgatttgcgtttag------------
  ||||| | ||||| ||||| |||||||| |||||  | |||||||||||| | |||||  | || ||||||||||||||||||||  | |||||||||||     || |||     || | |  | | | |    | |     |||| ||||     | |  ||  ||||      | | || | ||||  ||||              
ACTGAAGTTGGATCTTTCTTTGATGGAACACTATGAGAGACATTGTCCTCCTGCAGAAAGGAGATTCAATTGTTTGATTCCTCCACCGGCAGGATACAAGgtaaagaatatgccgagactagatgcgatcttaaacatcaacatatcctcgttaatacatttgtatcatgttcatcagtgtctaataatttctgtttctatggtgttgcag

upper sequence: AT1G04430.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv05s0049g01180.t01 (Vitis vinifera), 5'ss of exon 3
GTTGAAGCTTGATCTCTCTTTAATGGAACATTATGAACGGCATTGTCCTCCTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgtgctatatttgctttcttgttttgctttgatttgtgattggttcctggttacattgtcttgatat-tgttttgttctttgtattgatttgcgtttag
 |||||||| ||||| ||||| ||||| || |||||| | ||||| |||| ||| || || ||||  ||||| ||||||||||||||| | || |||||||||  | || ||| |       ||  |   | |    |  |  |    |||   || | ||  | | ||| |  | | ||| |               
ATTGAAGCTGGATCTTTCTTTGATGGAGCACTATGAAAGACATTGCCCTCTTCCTGAGAGGCGGTACAATTGCTTGATTCCTCCACCAGCAGGGTACAAGgtgaga-atgtgcgta---agcttaat---agtaacaagggtgttgaagttttcttatttttgtgtgtgtctcttcccttgcag--------------

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|116486105|gb|EG528697.1|EG528697
EST:     CTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAG                         GTTCCTATTAAGTGGCCTAAGAGTAGAGATGAAGTGTGGAAAGCAAACATA
genomic: CTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgtgctatatt ... ttgcgtttagGTTCCTATTAAGTGGCCTAAGAGTAGAGATGAAGTGTGGAAAGCAAACATA
EST: gi|125186430|gb|EL201384.1|EL201384
EST:     CTCCACCATCTGGATACAAG                         GTTCCTATTAAGTGGCCTAAGAGTAGAGATGAAGTGTGGAAAGCAAACATA
genomic: CTCCACCATCTGGATACAAGgtgctatatt ... ttgcgtttagGTTCCTATTAAGTGGCCTAAGAGTAGAGATGAAGTGTGGAAAGCAAACATA
EST: gi|116486106|gb|EG528698.1|EG528698
EST:     CTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAG                         GTTCCTATTAAGTGGCCTAAGAGTAGAGATGAAGTGTGGAAAGCAAACATA
genomic: CTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgtgctatatt ... ttgcgtttagGTTCCTATTAAGTGGCCTAAGAGTAGAGATGAAGTGTGGAAAGCAAACATA
EST: gi|124909506|gb|EH983586.1|EH983586
EST:     CTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAG                         GTTCCTATTAAGTGG
genomic: CTCCCGAAAGACGGTTTAATTGTTTGATTCCTCCACCATCTGGATACAAGgtgctatatt ... ttgcgtttagGTTCCTATTAAGTGG