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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCGATCAAAGCCTCTCAGCTTGGTCTCAAAACCACTTGTATCGAGAAACGCGGCGCTCTCGGTGGTACTTGTCTCAACGTCGGTTGCATTCCTTCCAAGgtcaaatttcgaatcatctctcgtttcttcaatcaatttgttgatcatagttgacgattttgatctgttccttttgtggatgattcttttgagagttaattactgtcttttgtgatgattatcatttgcttaagcacagttattccataattactaaattcttggttgtgtttattgatgtattag

Basic information

species Arabidopsis thaliana
transcript AT1G48030.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G48030.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G335657_T01 (Zea mays), 5'ss of exon 1
CGCGATCAAAGCCTCTCAGCTTGGTCTCAAAACCACTTGTATCGAGAAACGCGGCGCTCTCGGTGGTACTTGTCTCAACGTCGGTTGCATTCCTTCCAAGgtcaaatttcgaatcatctctcgtttcttcaatcaatttgttgatcatagttgacgattttgatctgttccttttgtggatgattcttttgagagttaattactgtcttttgtgatgattatcatttgcttaagcacagttattccataattactaaattcttggttgtgtttattgatgtattag
 |||||||| ||| | ||||| || ||||| ||||| || ||||||||  | ||| | ||||| || || |||||||||||||| |||||||| |||||||| |         ||  |       ||| |   |      ||| |  || |  || | | |  | |||| ||   |||    ||   |||| | ||||  | ||||                                                                                
GGCGATCAAGGCCGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACCCTCGGCGGGACCTGTCTCAACGTCGGATGCATTCCATCCAAGgtgatgccctagctcgccgtctccctctcctgcc--cccattgct-gtactacaccaatctc-tttgttgctac-gtgatgtatgactttgggtgttagat-ctgt--------------------------------------------------------------------------------

upper sequence: AT1G48030.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G462140_T01 (Zea mays), 5'ss of exon 1
CGCGATCAAAGCCTCTCAGCTTGGTCTCAAAACCACTTGTATCGAGAAACGCGGCGCTCTCGGTGGTACTTGTCTCAACGTCGGTTGCATTCCTTCCAAGgtcaaatttcgaatcatct-ctcgtttcttcaatcaatttgttgatcatagttgacgattttgatctgttccttttgtggatgattcttttgagagttaattactgtcttttgtgatgattatcatttgcttaagcacagttattccataattactaaattcttggttgtgtttattgatgtattag
 |||||||| ||| | ||||| || ||||| ||||| || ||||||||  | ||| ||||||| || || || ||||||||||| ||||| || |||||||| |         || ||| |||   |  ||  ||   |       ||| | ||  |      |||| ||  ||  |  | ||||  | ||     |    ||                                                                                    
GGCGATCAAGGCCGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACTCTCGGCGGGACCTGCCTCAACGTCGGATGCATCCCATCCAAGgtgatgccctagctcgtcttctcagcttctcgctctggtaacc--ccattgctg-tgccaccaatctctttgttgcgatg-tgatgatgtttgatctggggtat-----------------------------------------------------------------------------------

upper sequence: AT1G48030.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA07G36040.1 (Glycine max), 5'ss of exon 1
CGCGATCAAAGCCTCTCAGCTTGGTCTCAAAACCACTTGTATCGAGAAACGCGGCGCTCTCGGTGGTACTTGTCTCAACGTCGGTTGCATTCCTTCCAAGgtcaaatttc--gaatcatctctcgtttcttcaatcaatttgttgatcatagttgacgattttgatctgttccttttgtggatgattcttttgagagttaattactgtcttttgtgatgattatcatttgcttaagcacagttattccataattactaaattcttggttgtgtttattgatgtattag
 || || |||||  | ||||| ||||| ||||||||||| ||||| ||||| ||| ||||||| ||||| || ||||||||||| ||||| |||||||||||  | ||||   || |  || |   || | |  |   ||||||  |    ||    ||||   |    ||| |||| | |    ||| ||| |   ||   |  |||                                                                                
GGCCATTAAAGCGGCGCAGCTGGGTCTGAAAACCACTTGCATCGAAAAACGTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttcttcaaaccgcttttccttttcccctttttttgtttctgcgtgtctgggattcgaa---attcattttctag----ttcgtttaaatcttg--tgttgtt-------------------------------------------------------------------------------

upper sequence: AT1G48030.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA17G04210.1 (Glycine max), 5'ss of exon 1
CGCGATCAAAGCCTCTCAGCTTGGTCTCAAAACCACTTGTATCGAGAAACGCGGCGCTCTCGGTGGTACTTGTCTCAACGTCGGTTGCATTCCTTCCAAGgtcaaatttcgaatcatctctcgtttcttcaatcaatttgttgatcatagttgacgattttgatctgttccttttgtggatgattcttttgagagttaattactgtcttttgtgatgattatcatttgcttaagcacagttattccataattactaaattcttggttgtgtttattgatgtattag
||| ||||||||| | ||||| ||||| ||||||||||| ||||| || || ||| ||||||| ||||| || ||||||||||| ||||| |||||||||||  | ||||             ||| |  || |  |||  || |  |   || | |||  ||    ||| |||| | |    ||| ||| |   ||      |||  ||| || |  ||||| ||                                                            
CGCCATCAAAGCCGCGCAGCTCGGTCTGAAAACCACTTGCATCGAAAAGCGTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttc-------------tttttcaaaccgcttttctgtttgtgtgtggc-attcgga---attcattttctag----ttcgtttaaatcttg-----tgttgtttctggttcttatcttt------------------------------------------------------------

upper sequence: AT1G48030.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv05s0020g00380.t01 (Vitis vinifera), 5'ss of exon 1
CGCGATCAAAGCCTCTCAGCTTGGTCTCAAAACCACTTGTATCGAGAAACGCGGCGCTCTCGGTGGTACTTGTCTCAACGTCGGTTGCATTCCTTCCAAGgtcaaatttcgaatcatctctcgtttcttcaatcaatttgttgatcatagttgacgattttgatctgttccttttgtggatgattcttttgagagttaattactgtcttttgtgatgattatcatttgcttaagcacagttattccataattactaaattcttggttgtgtttattgatgtattag
||| || |||||  | |||||||||||||| ||||| ||||||||||| |||||| ||||||| ||||| ||||||||||||||||| ||||||||||||||  ||| | |  |   || |  ||||||   |  |  | || ||     |||     || |||||||   |||||| |    ||  |||||    |    ||| | | ||                                                                           
CGCCATTAAAGCTGCCCAGCTTGGTCTCAAGACCACCTGTATCGAGAAGCGCGGCACTCTCGGCGGTACCTGTCTCAACGTCGGTTGTATTCCTTCCAAGgt--aatatagggtttccttttttttcttttttggaaatttttatttctcttg-----ttggatctgtggattttgttg----tttgtttgatttctggcgactttgtgtt---------------------------------------------------------------------------

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|125315757|gb|EL329842.1|EL329842
EST:     GCGGCGCTCTCGGTGGTACTTGTCTCAACGTCGGTTGCATTCCTTCCA-G                         GCTCTGCTTCACTCTTCACAT
genomic: GCGGCGCTCTCGGTGGTACTTGTCTCAACGTCGGTTGCATTCCTTCCAAGgtcaaatttc ... gatgtattagGCTCTGCTTCACTCTTCACAT
EST: gi|125322920|gb|EL337005.1|EL337005
EST:     CGGCGCTCTCGGTGGTACTTGTCTCAACGTCGGTTGACATTCCTTCCAAG                         GCTCTGCTTCACT
genomic: CGGCGCTCTCGGTGGTACTTGTCTCAACGTCGGTTG-CATTCCTTCCAAGgtcaaatttc ... gatgtattagGCTCTGCTTCACT
EST: gi|124717446|gb|EH808848.1|EH808848
EST:     CATTCCTTCCAAG                         GCTCTGCTTCACTCTTCACATATGTACCATGAGGCGAAGCATTCCTTCGCT
genomic: CATTCCTTCCAAGgtcaaatttc ... gatgtattagGCTCTGCTTCACTCTTCACATATGTACCATGAGGCGAAGCATTCCTTCGCT