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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagtactctttagcagtcttctaatctctatttgacaactaactgtgacaacgcatggtgctcattttttttcttttacactttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G02090.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G02090.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G027551_T01 (Zea mays), 5'ss of exon 2
GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagtactctttagcagtcttctaatctctatttgacaactaactgtgacaacgcatggtgctcattttttttcttttacactttgcag
 || | || ||||||   || |||   ||||| ||||||||||| ||  | |||||||| || ||||| |||||||| |||||||||||      |     ||  ||   |   |      | ||||  | ||    ||   | | |                                 
ATACTACCATATGATCAGCTCATGCAAGAGTTGGATGTTTCCAACGTAAGAGAACTCGAAGATTTTCTAATCAATGAGTGCATGTATGCAagagttggatgtttccaacgtaagaga----acttgaagattatgcatgttcatgtag--------------------------------

upper sequence: AT1G02090.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G152100_T02 (Zea mays), 5'ss of exon 2
GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagtactctttagcagtcttctaatctctatttgacaactaactgtgacaacgcatggtgctcattttttttcttttacactttgcag
 || | || ||||||   || |||   ||||| ||||||||||| ||  | |||||||| || ||||| |||||||| |||||||||||      |     ||  ||   |   |      | | ||  | ||    ||   | | |                                 
ATACTACCATATGATCAGCTCATGCAAGAGTTGGATGTTTCCAACGTAAGAGAACTCGAAGATTTTCTAATCAATGAGTGCATGTATGCAagagttggatgtttccaacgtaagaga----actcgaagattatgcatgttcatgtag--------------------------------

upper sequence: AT1G02090.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G115277_T02 (Zea mays), 5'ss of exon 4
GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagta--------ctctttag--cagtcttctaatctctattt---------------gacaactaactgtgaca---acgcatggtgctcattttttttctt-ttacactttgcag--------------------------------------------------------------------------------
 || | || ||||||   || |||   ||||| ||||||||||| ||  | |||||||| || ||||| |||||||| ||||||||| | ||||||         |||||||    ||     |||| | | | |               |||   ||| |||| ||   ||   |  || |  | ||||||||| |||   || |  |                                                                                
ATACTACCATATGATCAGCTCATGCAAGAGTTGGATGTTTCCAACGTAAGAGAACTCGAAGATTTTCTAATCAATGAGTGCATGTATTCAgtgagttgttacatcctctttaaattagatacttaatatttgtataaaccattcttgtgagactcgtaaatgtgtcatttaccactaatggtagtattttttcttcttatttttagtggttttacattggtctttagtatctagtgttgcttaaagtatttttggtatcatatccataatattatgcatgttcatgtag

upper sequence: AT1G02090.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G085670_T06 (Zea mays), 5'ss of exon 4
GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagtactctttagcagtcttctaatctc-tatttgacaactaactgtgacaacgcatggtgctcattttttttcttttacactttgcag
 || | || ||||||   || |||   ||||| ||||||||||| ||  | |||||||| || ||||| |||||||| ||||||||| | ||||||  | ||      ||||  |||    || || | |  |   |    ||   |                                  
ATACTACCATATGATCAGCTCATGCAAGAGTTGGATGTTTCCAACgtaagagaactcgaagattttctaatcaatgagtgcatgtattcagtgagt--tgttacatcctctttaaattagatacttaatatttgcataaaccattcc----------------------------------

upper sequence: AT1G02090.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G152805_T01 (Zea mays), 5'ss of exon 4
GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagta--------ctctttag--cagtcttctaatctctattt---------------gacaactaactgtgaca---acgcatggtgctcattttttttctt-ttacactttgcag--------------------------------------------------------------------------------
 || | || ||||||   || |||   ||||| ||||||||||| ||  | |||||||| || ||||| |||||||| ||||||||| | ||||||         |||||||    ||     |||| | | | |               |||   ||| |||| ||   ||   |  || |  | ||||||||| |||   || |  |                                                                                
ATACTACCATATGATCAGCTCATGCAAGAGTTGGATGTTTCCAACGTAAGAGAACTCGAAGATTTTCTAATCAATGAGTGCATGTATTCAgtgagttgttacatcctctttaaattagatacttaatatttgtataaactattcctgtgagacttgtaaatgtgtcatttaccactaatggtagtattttttcttcttatttttagtggttttacattggtctttagtatctagtgttgcctaaagtatttttggcatcatatccataatattatgcatgttcatgtag

upper sequence: AT1G02090.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G085670_T03 (Zea mays), 5'ss of exon 4
GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagta--------ctctttag--cagtcttctaatct---------------ctatttgacaactaactgtgaca---acgcatggtgctcattttttttctt-ttacactttgcag--------------------------------------------------------------------------------
 || | || ||||||   || |||   ||||| ||||||||||| ||  | |||||||| || ||||| |||||||| ||||||||| | ||||||         |||||||    ||     |||| |               || |  |||   ||| || | ||   ||   |  || |  | ||||||||| |||   || |  |                                                                                
ATACTACCATATGATCAGCTCATGCAAGAGTTGGATGTTTCCAACGTAAGAGAACTCGAAGATTTTCTAATCAATGAGTGCATGTATTCAgtgagttgttacatcctctttaaattagatacttaatatttgcataaaccattcctgtgagactcgtaaatgcgtcatttaccactaatggtagtattttttcttcttatttttagtggttttacattggtctttagtttctagtgttgcctaaagtatttttggcgtcatatccataatattatgcatgttcatgtag

upper sequence: AT1G02090.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G25690.1 (Glycine max), 5'ss of exon 4
GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagtactctttagcagtcttctaatctctatttgacaac-taactgtgaca-acgcatggtgctcatttttt-ttcttttacactttgcag--------
||| | ||||||||   ||| |||   |||||||||||  | |||||||| || || || || ||||| || ||||||||||||||||||||  | | || ||  |   |    | | | ||  | |  |  | | ||| | | ||  | |  |    ||| |  ||  ||    |     |         
GTACTACCCTATGACCAACTGATGCAGGAGTTAGATGTGACAAATGTTCGTGAGCTTGAAGATTTTCTAATTAATGAATGCATGTATGCGgtaggca-tcattcccttccagagagtgtttacataaatatatgattgtaatacacatacgcagtctgtttgtgattgattctggcaacataatctggttt

upper sequence: AT1G02090.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G35760.1 (Glycine max), 5'ss of exon 4
GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagtactctttagcagtcttctaatctctatttgacaactaactgtgacaacgcatg-----gtgctcattttttttcttttacactttgcag------
||| | ||||||||   ||| |||   |||||||||||  | |||||||| || || || || ||||| || ||||||||||||||||||||  | |   || |      | || |    |   || ||  ||    | | || | |           ||||| |   | || |     |||         
GTACTACCCTATGACCAACTGATGCAGGAGTTAGATGTGACAAATGTTCGTGAGCTTGAAGATTTTCTAATTAATGAATGCATGTATGCGgtaggcatcattcattcccttcctgagtgtttaatg-catttactgctcaaaatgtacatttacaccatcattatcactgttatgattattgttattgcta

upper sequence: AT1G02090.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv15s0021g01580.t01 (Vitis vinifera), 5'ss of exon 4
GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagtactcttta-gcagtcttctaatctctatttgacaactaactgt---gacaa---cgcatggtgctc--attttttttcttttacactttgcag-
||| | |||||||||  ||| |||   || ||||||||| | ||||| || ||||| || || |||||||||||||| ||||||||||||||  ||| || | | || |  ||||     | |    || |   |||||   || ||   |   |  ||||   |   |  || |||||    |  ||| 
GTACTCCCCTATGATCAACTGATGCAGGAATTAGATGTTACAAATGTACGTGAACTTGAAGATTTTCTTATCAATGAGTGCATGTATGCGgtaggtattcatcaagctggattctgcatccaaccaaactatagactgttttgagaaattcttgtaatgctaggaaaataattattttaactgtcccagg

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|301502449|gb|HO207989.1|HO207989
EST:     CCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCG                         GGTATAGTTAGGGGAAAACTGGATCAGTTAAAAAGATGTTTTGAG
genomic: CCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCGgtgagtactc ... cactttgcagGGTATAGTTAGGGGAAAACTGGATCAGTTAAAAAGATGTTTTGAG
EST: gi|164015102|gb|ES097755.1|ES097755
EST:     CTTATCAATGAATGCATGTATGCG                         GGTATAGTTAGGGGAAAACTGGATCAGTTAAAAAGATGTTTTGAG
genomic: CTTATCAATGAATGCATGTATGCGgtgagtactc ... cactttgcagGGTATAGTTAGGGGAAAACTGGATCAGTTAAAAAGATGTTTTGAG