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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGTTTCTTTGGATATGCTTGGTCGCATCTTCAATGGTTCAGGGAAGCCCATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgctttagcctcttgtcacataattactatctcataataaaacacacagatataattctagacttttgtttctccag

Basic information

species Arabidopsis thaliana
transcript AT4G38510.5
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G38510.5 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 5'ss of exon 6
CCTGTTTCTTTGGATATGCTTGGTCGCATCTTCAATGGTTCAGGGAAGCCCATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgctttagcctcttgtcacataattac--tatctcataataaaacacaca----------gatataatt-----ctagacttttgtttctccag-------------------------------------
||||| ||  | ||||||||||| ||||| || ||||| || || || |||||||| || || |||||||| ||||| ||||| ||||||||||| |||||| || |  |      |   |   ||    ||    |  ||||| | ||   ||              ||    |     ||| |||| | ||||||                                        
CCTGTCTCACTTGATATGCTTGGGCGCATTTTTAATGGATCTGGAAAACCCATTGATAATGGCCCACCTATTTTGCCAGAGGCCTACTTGGATATCTCTGgtaagtttttgctcaattcaggtgcactgctatggaaattcatagttaagtgcatgttcttttatcagtacggatggtggctaaacttatatttctcttctgataatattaataatgtcttccgatgtttattccag

upper sequence: AT4G38510.5 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G094497_T02 (Zea mays), 5'ss of exon 5
CCTGTTTCTTTGGATATGCTTGGTCGCATCTTCAATGGTTCAGGGAAGCCCATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgctttagcctcttgt-cacataattactat-ctcataataaaacaca----------cagatataattctagact--tttgtttctccag---------------------------------------------------------
||||| ||  | ||||||||||| ||||| || |||||||| || || || |||||||| || || || |||||||| || || ||||||||||| |||||| ||    ||  |  ||| |    |     ||| || |||||  | ||   ||          ||||     || |||||   || |||  |  ||                                                         
CCTGTCTCACTTGATATGCTTGGGCGCATTTTTAATGGTTCTGGAAAACCTATTGACAATGGCCCCCCGATATTGCCCGAAGCCTACTTGGATATCTCTGgtaagtaatttctggttctagcatgctgctctacaatactcatggttaagtgcatgctgtcgtgcagagtaggttttagacgtattggttaattgagttaaatcaatgagtccatctttaaattttgtaaatatgtactctgattttgctgcag

upper sequence: AT4G38510.5 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 6
CCTGTTTCTTTGGATATGCTTGGTCGCATCTTCAATGGTTCAGGGAAGCCCATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgctttagcctcttgt-cacataattactat-ctcataataaaacacacag---atataattctagacttttgtttctccag----------------------------------------------------------------------
||||| ||  | ||||||||||| ||||| || |||||||| || || || |||||||| || || || ||||| ||||| || ||||||||||| |||||| ||    ||  |  ||  |  | |     ||| || |||||  | ||   ||        | | |  |||  ||| |                                                                               
CCTGTCTCACTCGATATGCTTGGGCGCATTTTTAATGGTTCTGGAAAACCTATTGACAATGGCCCCCCGATATTACCTGAAGCCTACTTGGATATCTCTGgtaagtaatttctggttcaagcacgctgctctacaatgctcatggtgaagtgcatgttgtggagagtagtaggttttagaagtattgattgattagcggcattaaatcaatgagtccatctttaaagtttgtaatcatgtactctgattttgttgcag

upper sequence: AT4G38510.5 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA20G24070.1 (Glycine max), 5'ss of exon 7
CCTGTTTCTTTGGATATGCTTGGTCGCATCTTCAATGGTTCAGGGAAGCCCATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgctttagcctcttgtcacataattactatctcataataaaacacacagatataattctagacttttgttt----ctccag
||||| ||  |||| |||||||| ||||| || |||||||| || || || ||||| || |||||||| || || |||||||| ||| ||||||||||||||       || |    |||  ||      ||| ||   ||  | |          | |    |   |  | |         | |||
CCTGTCTCACTGGACATGCTTGGACGCATATTTAATGGTTCTGGAAAACCAATTGATAATGGTCCACCAATTTTACCTGAGGCTTACCTGGATATTTCTGgta-----tttaaattcctttgcagtgttctacaattgtatgttgatgtgtgagttttttccccctaatatcttcccaatatttcag

upper sequence: AT4G38510.5 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA18G48280.1 (Glycine max), 5'ss of exon 6
CCTGTTTCTTTGGATATGCTTGGTCGCATCTTCAATGGTTCAGGGAAGCCCATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgctttagcctcttgtcacataattactatctcataataaaacacacagatataattctagacttttgtttctccag
 | || || ||||| |||||||| ||||| ||||||||||| || || || ||||| || |||||||| || || |||||||| |||||||| || || |||       ||   | ||| |  |  |  | | |||  |||  |        |   | ||| | |   |  | ||   ||  |
-CAGTATCATTGGACATGCTTGGCCGCATATTCAATGGTTCTGGAAAACCAATTGATAATGGTCCACCCATTTTACCTGAGGCTTACTTGGACATATCAGGtatataattt---cttctggggaggtc-tgaatatg-catgtttttctttgcctttttaaatattttccct-gtaattcagg

upper sequence: AT4G38510.5 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA09G38110.2 (Glycine max), 5'ss of exon 6
CCTGTTTCTTTGGATATGCTTGGTCGCATCTTCAATGGTTCAGGGAAGCCCATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgctttagcctcttgtcacataattactatctcataataaaacacacagatataattctagacttttgtttctccag
|| || || ||||| |||||||| ||||| ||||||||||| || || || ||||| || |||||||| ||||| || ||||| |||||||| || || |||       ||   | ||| |  |  || | | ||| | ||  | |      |   | | | | ||  |      |  | |||
CCAGTATCATTGGACATGCTTGGCCGCATATTCAATGGTTCTGGAAAACCAATTGATAATGGTCCACCCATATTACCCGAGGCTTACTTGGACATATCAGgtataaaattt---cttctggggaggta-tgaatatgt-atgtttatctttgccttttttaatatatccccca--taattcag

upper sequence: AT4G38510.5 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA10G42940.2 (Glycine max), 5'ss of exon 6
CCTGTTTCTTTGGATATGCTTGGTCGCATCTTCAATGGTTCAGGGAAGCCCATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgctttagcctcttgtcacataat-tactatctcataataaaacacacagatataattctagacttttgtttctccag----
||||| ||  | || |||||||| ||||| || ||||| || || || || ||||| || |||||||| || || |||||||| ||| ||||||||||||||       |||| | || | |    |  | ||| ||   ||  | |       |  | ||   |   |  | |         |    
CCTGTCTCACTAGACATGCTTGGACGCATATTTAATGGCTCTGGAAAACCAATTGATAATGGTCCACCAATTTTACCTGAGGCTTACCTGGATATTTCTGgta------tttaacttcctttgcagtgttctacaattgtatgttgatgtgtgaatttttaccccctaatatcttcccaatatgtcag

upper sequence: AT4G38510.5 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 6
CCTGTTTCTTTGGATATGCTTGGTCGCATCTTCAATGGTTCAGGGAAGCCCATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgctttagcc-tcttgtcacataattacta-------tctcataa---taaaacacacagatata----attctagacttttgtttctccag--------
||||| || |||||||||||||| || ||||| |||||||||||||| |||||||| || || || ||||||||||| ||||| ||||||||||||||||||||| |  ||  |   |  | | |  |||  | ||        |||  ||   || |    |||    |     || ||  ||| || ||  | |          
CCTGTCTCATTGGATATGCTTGGGCGTATCTTTAATGGTTCAGGGAAACCCATTGATAATGGGCCTCCTATATTGCCAGAGGCTTACTTGGATATTTCTGgtgagttttttaggaggtggtattatttaaccattaaaactcacctctgaactttagagtttacaacagtggcagatcctgtactctttttctttccttttttcag

upper sequence: AT4G38510.5 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 5'ss of exon 5
CCTGTTTCTTTGGATATGCTTGGTCGCATCTTCAATGGTTCAGGGAAGCCCATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgctttagcc-tcttgtcacataa--ttactatctcataataaaacacacagat---ataattctagacttttgtttctccag-----------
|| || || ||||| |||||||| || |||||||||||||| ||||| |||||||||||||| || || ||  |  | || || ||| | || ||||| |||| | |  |||     |||| ||   |||  | |  ||||   ||||      | ||||   | |  | |     || ||   |               
CCGGTCTCATTGGACATGCTTGGACGTATCTTCAATGGTTCTGGGAAACCCATTGACAACGGCCCTCCCATTCTTGCAGAAGCCTACCTTGACATTTCAGgtgcggtcttttgcttgtcttttccactaacctcagcatcttggaatattttttaaagattgaagagatttgcttattagtcaatttgacatgacctcag

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|86066802|gb|DR362559.1|DR362559
EST:     CATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTG                         GAAGTTCTATCAATCCCAGTGAGAGAACCTATCCTGAAGAGATGATTCAGA
genomic: CATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgct ... gtttctccagGAAGTTCTATCAATCCCAGTGAGAGAACCTATCCTGAAGAGATGATTCAGA
EST: gi|86066806|gb|DR362563.1|DR362563
EST:     CATTGACAACGGTCCACCTATATTGCCTGAGGCGNACTAGGATATTTCTG                         GAAGTTCTATCAATCCCAGTGAGAGAACCTATCCTGAANAGATGATTCAGA
genomic: CATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgct ... gtttctccagGAAGTTCTATCAATCCCAGTGAGAGAACCTATCCTGAAGAGATGATTCAGA
EST: gi|116450411|gb|EG493003.1|EG493003
EST:     GGCGTACTTGGATATTTCTG                         GAAGTTCTATCAATCCCAGTGAGAGAACCTATCCTGAAGAGATGATTCAGA
genomic: GGCGTACTTGGATATTTCTGgtgagctgct ... gtttctccagGAAGTTCTATCAATCCCAGTGAGAGAACCTATCCTGAAGAGATGATTCAGA
EST: gi|86066801|gb|DR362558.1|DR362558
EST:     CATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTG                         GAAGTTCTATCAATCCCAGTGAGAGAACCTATCCTGAAGAGATGATTCAGA
genomic: CATTGACAACGGTCCACCTATATTGCCTGAGGCGTACTTGGATATTTCTGgtgagctgct ... gtttctccagGAAGTTCTATCAATCCCAGTGAGAGAACCTATCCTGAAGAGATGATTCAGA