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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAACATTAGATGCTGCTGCTTGGATGTTCAATGTTGTTACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCTACTTATGGCTTTAGCTTTGgtacttcttcttcatcaaaaccttatttacaatcatatcttcaaattatttgtctaatattttcaatttcaatgcag

Basic information

species Arabidopsis thaliana
transcript AT4G09810.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os05g12490.1 (Oryza sativa), 5'ss of exon 2
GCAACATTAGATGCTGCTGCTTGGATGTTCAATGTTGTTACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCTACTTATGGCTTTAGCTTTGgtacttcttcttcatcaaaaccttatt-tacaatcatatcttcaaattatttgtctaatattttcaatttcaatgcag-------------------------------------------------
||| ||||||||||||  ||||||||||||||  |||| || ||||||||||||||||| || || || || |||||||||||  |||| ||||| ||||||||      || || ||  | ||||| |  | |||||| |   |    || |    ||   |        ||  |||                                                 
GCAGCATTAGATGCTGGAGCTTGGATGTTCAACATTGTGACATCTGTTGGTATCATCATGGTCAACAAGGCCTTAATGGCTACACATGGTTTTAGTTTTGgtacgataaattgat-aatgctttattatttactcatatgtgtgatcacttggaaagatgaatctgtaacaaactcagctactgaacacatgcttgtactaatatgggggtgctattgcttgtacag

upper sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os02g40090.4 (Oryza sativa), 5'ss of exon 2
GCAACATTAGATGCTGCTGCTTGGATGTTCAATGTTGTTACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCTACTTATGGCTTTAGCTTTGgtacttcttcttcatcaaaaccttatttacaatcatatcttca--aattatttgtcta-atattttcaatttcaatgcag-----------------------------------------------------------------------------
|||    | |||||||  || ||||||||||| ||||| || || |||||||||||||| || || || || |||||||| ||  |||| ||||| |||||||   | |  |    ||  ||| | |     |   ||  |||  |||   |||||   |  | ||     |   || |                                                                              
GCAGTGCTGGATGCTGGAGCATGGATGTTCAACGTTGTGACATCAGTTGGTATCATCATGGTCAACAAGGCATTAATGGCCACACATGGTTTTAGTTTTGgtaagacatgcta--taattcctcactcgtggttgaattgtcaagaatgccttgtccgcacgtcttatggatagttggactaaaccgaactatcgttgtgcagcaaaccagtcagattttttgtgctaatgatgtgttccattgtgtgtttgtgcag

upper sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 1
GCAACATTAGATGCTGCTGCTTGGATGTTCAATGTTGTTACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCTACTTATGGCTTTAGCTTTGgtact--tcttcttcatcaa-aaccttatttacaatcatatcttcaaattatttgtctaatattttcaatttcaatgcag-----------------------------------------------------------------------
||| || |||||||||  || |||||||||||||| || || ||||||||||||||||| || || ||||  |||||||| ||| |||||||||| |||||||      | |   |||   |  | ||  | ||  |  ||     | | |   |     | ||||| || | || | |                                                                        
GCAGCACTAGATGCTGGCGCATGGATGTTCAATGTCGTCACATCTGTTGGTATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcatgcccaatcttcattcctaactgcatgcg-atgcctgattcacgcgcgccttcttttctatctaaaagtaaactactattgtgcagaaaaattcagtctgcttgtcttgtgctaatttgttcactaccttttgctcctacag

upper sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
GCAACATTAGATGCTGCTGCTTGGATGTTCAATGTTGTTACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCTACTTATGGCTTTAGCTTTGgta----------cttcttcttcatcaaaaccttatttacaatcat-atcttcaaattatttgtctaatattttcaatttcaatgcag-----------------------------------------------------------------------------------------------------
||| || |||| ||||  || |||||||||||||| || || || |||||||||||||| || || ||||| |||||||| ||  |||| ||||| || ||||          |  | | |   ||  |        ||| |  |  ||    || | |   |  |  |  ||||  | | ||   |                                                                                                      
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag

upper sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G27820.1 (Glycine max), 5'ss of exon 1
GCAACATTAGATGCTGCTGCTTGGATGTTCAATGTTGTTACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCTACTTATGGCTTTAGCTTTGgtacttcttcttcatcaaaaccttatttacaatcatatcttcaaattatttgtctaatattttcaatttcaatgcag-----------------------------------------------------------------------------------
||  |  | ||||| ||||| |||||||||||||||||||| |||||||| ||||||||||| || |||||||| ||||| ||||||||||| || |||||||  | | |||  ||||   |||| | ||| |  | |  |     || |       | ||  ||  |   ||                                                                                       
GCTGCTATGGATGCAGCTGCATGGATGTTCAATGTTGTTACATCTGTTGGAATCATCATTGTAAACAAAGCTTTGATGGCCACTTATGGCTTCAGTTTTGgtaaat-tccttattcaatttcttaatgacatttctgttattggtatactgagtc--ttttcccaggtagtatatgatcatgatcatgctctgatgttaattttttttttatcttttaatgtgatttgtctattactgcttgcggccacaacattaacag

upper sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G08700.1 (Glycine max), 5'ss of exon 2
GCAACATTAGATGCTGCTGCTTGGATGTTCAATGTTGTTACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCTACTTATGGCTTTAGCTTTGgtacttcttcttcatcaaaaccttatttacaatcatatctt---caaattatttgtctaatatt--ttcaatttcaatgcag------------------------------------
||  |  | ||||| ||||| |||||||||||||||||||| |||||||| ||||||||||| || |||||||| |||||  |||||||||| || |||||||  |   ||     |   | | ||  ||  |  | |  |   ||||||   | |   ||  |  |   || | |||                                        
GCTGCCGTGGATGCAGCTGCATGGATGTTCAATGTTGTTACATCTGTTGGAATCATCATTGTAAACAAAGCTTTGATGGCCTCTTATGGCTTCAGTTTTGgtaaattccctattcaatttcttaatggacgtttctgttattggcaaattccctatacgatcatgctctgatgttaattttttatcttttaatgtgatttgtctattactgcttgcag

upper sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G36620.1 (Glycine max), 5'ss of exon 1
GCAACATTAGATGCTGCTGCTTGGATGTTCAATGTTGTTACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCTACTTATGGCTTTAGCTTTGgtacttcttcttcatcaaaaccttatttacaatcatatct---tcaaattatttgtctaatattttcaatttcaatgcag---------------------
|||||| | || || ||||| ||| ||||||||||||| |||||||||||  | |||||||| || |||||||| ||||| ||||||||||| || |||||||  |   |||   |||    | | | | |    |   |   | | ||| | | | |   ||| |  | ||  ||  |                      
GCAACAGTGGACGCAGCTGCATGGGTGTTCAATGTTGTCACTTCTGTTGGAGTTATCATTGTAAACAAAGCTTTGATGGCCACTTATGGCTTCAGTTTTGgtaaattaacttt-ccaatttttcactgatatctgttcttgggttacattgtgtttttggaattatggaatttgatatatagagggaggaagagagataaa

upper sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 1
GCAACATTAGATGCTGCTGCTTGGATGTTCAATGTTGTTACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCTACTTATGGCTTTAGCTTTGgtacttcttcttcatcaaaaccttatttacaatcatatcttcaaattatttgtcta---atattttcaatttcaatgcag--------------------
||| || ||||||| || || ||||||||||||||||| ||||||||||| || ||| |||| || ||||| ||||||||||| ||||| || || ||||||| ||||| |  |    ||  ||   |    || |   || |  |  |||| ||    |||||||  |  |  |||                       
GCAGCACTAGATGCAGCCGCATGGATGTTCAATGTTGTCACTTCTGTTGGGATTATCCTTGTCAACAAAGCATTAATGGCTACATATGGATTCAGTTTTGgtaattcttttctaaagtaaatttgcgttttttctttgattaatttcttttgcctgtgtatattttttacatgcatgtgtggataattctcacttcttaa

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|125033803|gb|EL106072.1|EL106072
EST:     ATCATCATTGTTAATAAAGCTTTAATGGTCTACTTATGGCTTTAGCTTTG                         CTACAACGTTAACCGGTTTACATTTCGCCACTACGACGTTGATGACGCTTG
genomic: ATCATCATTGTTAATAAAGCTTTAATGG-CTACTTATGGCTTTAGCTTTGgtacttcttc ... ttcaatgcagCTACAACGTTAACCGGTTTACATTTCGCCACTACGACGTTGATGACGCTTG