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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTACATATGGGCTTGTCCACCACTGAAGGGTGAGGATTATATCCTATATTGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATGgtcagtctaattgtctttggtgattttcttcatacagttttcgtaggaaaatcctttacatcctccaatttgctcctggtctacacag

Basic information

species Arabidopsis thaliana
transcript AT1G16710.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os06g49130.2 (Oryza sativa), 5'ss of exon 10
GCTACATATGGGCTTGTCCACCACTGAAGGGTGAGGATTATATCCTATATTGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATGgtcagtcta---attgtctttggtgattttcttcatacagttttcgtaggaaaatcctttacatcctccaatttgctcctggtctacacag------------
| || ||||||||||| || ||  | || ||||| ||||| ||  | |||||||||||||| |||||||| |||||||||||||||||||| ||  | |||| || | |   |||| | |   || | || | | |     |   || |    ||   |    |  | |  | ||| | ||| |  || |             
GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaagaccatagattggcatctatgttgttatccttgttaatagtgtggctgcatttgtggggtaatgc--tctgcccttgg-cagcaaaaaaatggtttctg

upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G139977_T02 (Zea mays), 5'ss of exon 4
GCTACATATGGGCTTGTCCACCACTGAAGGGTGAGGATTATATCCTATATTGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATGgtcagtctaattgtctttggtgattttcttcatacagttttcgtaggaaaatcctttacatcctccaatttgctcctggtctacacag
| ||||||||||||||||||||  |||||||||| ||||| ||| ||||||||||||| || ||||| || || || || ||||||||||| || || |||| || || |  | |     |||| || ||      | |||       | |||||  ||    || ||| |  |      | |     
GTTACATATGGGCTTGTCCACCTTTGAAGGGTGAAGATTACATCTTATATTGCCATCCTGAGATTCAAAAGACTCCGAAATCTGATAAACTGCGTGAGTGgtaagccttagagacacaattgatcttgtt------gctttt------agatcctccaccagttctaatgtcttttacacccag----

upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G470556_T01 (Zea mays), 5'ss of exon 10
GCTACATATGGGCTTGTCCACCACTGAAGGGTGAGGATTATATCCTATATTGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATGgtcagtct-aattgtct--ttggtgattttcttcatacagttttcgtaggaaaatcctttacatcctccaatttgctcctggtctacacag
| |||||||||||||| |||||  |||||||||| ||||| ||| ||||||||||||| || ||||| || || || || ||||| ||||| || || |||| || || |  ||||   |||||  | ||  |  || |   | |        ||   | |  || |     || ||| |  || || |||
GTTACATATGGGCTTGCCCACCTTTGAAGGGTGAAGATTACATCTTATATTGCCATCCTGAGATTCAAAAGACTCCGAAATCTGACAAACTGCGTGAGTGgtaagccttaggtgtccaattggtcttgttgcttttagatcctccacc-----atttctaatgtctt-----ttactctta-tccacccag

upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G24290.1 (Glycine max), 5'ss of exon 13
GCTACATATGGGCTTGTCCACCACTGAAGGGTGAGGATTATATCCTATATTGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATGgtcagtctaattgtctt--tggtgattttcttcatacagttttcgtaggaaaatcctttacatcctccaatttg-ctcctggtctaca----cag-----------------------
|||| || ||||| ||||| ||| | ||||| || ||||||||  |||||||||||||||||||||||||||||||||| || ||||| ||||| ||||||| || ||||| |  |   |   ||     |  | | |  ||   ||   |  | | ||  |   |   ||| |  |  |  |||  |    |||                       
GCTATATCTGGGCCTGTCCTCCATTAAAGGGAGAAGATTATATTTTATATTGCCATCCAGAAATTCAGAAAACACCAAAATCCGATAAGCTACGTGAATGgtgagcctaatagcttcagtatagacaaaatgaaaaaaagttgtctatttattttccttgtacaatgtgattaggttatttatctctaacttcagcatttgtaaacatgtttcttcag

upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA15G00250.1 (Glycine max), 5'ss of exon 11
GCTACATATGGGCTTGTCCACCACTGAAGGGTGAGGATTATATCCTATATTGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATGgtcagtctaattgtctttgg-tgattttcttcatacagttttcgtaggaaaatcctttacatcctccaatttgctcctggtctacacag------------------------------------
||||||||||||| ||||| ||| | |||||||| ||||||||  ||||||| ||||| |||||||||||||| ||||| |||||||| ||  ||||||||| ||| |||  |  |  || | |   |  | | | |||     |    || |  |||||||  | |||  |||||  |||   ||                                       
GCTACATATGGGCATGTCCTCCATTAAAGGGTGAAGATTATATTTTATATTGTCATCCGGAAATTCAGAAAACTCCAAAATCTGATAAGCTTAGGGAATGgtaagtttaaaagcttcaggataaacataatgagaaagtgaagttgcctaattgttttacatg-tacaaaatgctcaaggtactcatttctaactatagtttgtttcatgaacaatttccaacag

upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA07G00230.1 (Glycine max), 5'ss of exon 11
GCTACATATGGGCTTGTCCACCACTGAAGGGTGAGGATTATATCCTATATTGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATGgtcagtctaattgtctttggtgattttcttcat-acagttttcgtaggaaaatcctttacatcctccaatttgctcctggtctacacag-----------------------------------
|||| || ||||||||||| ||| | ||||| || ||||||||  |||||||||||||||||||||||||||| ||||| || ||||| ||||| ||||||| ||  |||| | |||  || || | |   || | |       | |   | |  ||| | |  | |||| || |   ||| ||  ||                                    
GCTATATCTGGGCTTGTCCTCCATTAAAGGGGGAAGATTATATTTTATATTGCCATCCAGAAATTCAGAAAACCCCAAAATCCGATAAGCTACGTGAATGgtgagcgtaatag-cttcagt-atatacaaaatgagaaaaaaacttgtctatttattttccttgtacaatgtgatta-ggtttattcatctctaacttcagcatttgtcaacatgtttctgcag

upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 5'ss of exon 10
GCTACATATGGGCTTGTCCACCACTGAAGGGTGAGGATTATATCCTATATTGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATGgtcagtctaattgtctttgg----------------tgattttcttcatacagttttcgtaggaaaatcctttacatcctccaatttgctcc---tggtctacacag---------------
|||| |||||||||||||| ||  |||||||||| || |||||  | ||||||||||| |||||||||||||||||||| |||||||||||  | ||||||| ||  || || || || |                | |||||  |  |     |||| |   | ||   ||||   |  || | |   ||    |||| | ||||                
GCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATCCTGAAATTCAGAAAACACCAAAATCTGATAAACTCAGAGAATGgtgagagtagttatcgttagaaaatagaagtttgaatcattttactagtttcaatttcctgaaataagtttttattcctccctaatccttctggttggtgtgcacaaaattttctatttcag

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|116434362|gb|EG476954.1|EG476954
EST:     TGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATG                         GTACTTAGCAATGTTGAGAAAAGCTGCAAAGGAAGGAATTGTTGCGGAAAC
genomic: TGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATGgtcagtctaa ... gtctacacagGTACTTAGCAATGTTGAGAAAAGCTGCAAAGGAAGGAATTGTTGCGGAAAC