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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTTTGGGTCAATCTTATAATGGATACTCTTGGGGCTCTTGCTTTAGCCACTGAGCCACCAACCGATCACTTAATGGATCGAGCGCCTGTTGGCAGAAGgtaccacttcttatcagacttgagcatgcgtgttaagtcttgttcaactatagagtgctctcagtttctcttcaatttgcacaataattggatttatcttttgctctcag

Basic information

species Arabidopsis thaliana
transcript AT4G29900.1
intron # 29
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G29900.1 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: GLYMA09G06890.1 (Glycine max), 5'ss of exon 27
TCCTTTGGGTCAATCTTATAATGGATACTCTTGGGGCTCTTGCTTTAGCCACTGAGCCACCAACCGATCACTTAATGGATCGAGCGCCTGTTGGCAGAAGgtaccacttcttatcagacttgagcatgcgtgttaagtcttgttcaactatagagtgctctcagtttctcttcaatttg---cacaataattggatttatcttttgctctcag
| |||||||| |||||||| ||||||||||| || || || ||  | || ||||| |||||||| |||||| | ||||||||| | || || ||  ||||||   | || ||||    || ||  ||   ||   | |  | |   | | ||| ||   | ||||   |    |||| |   ||  | | |||||                  
TTCTTTGGGTGAATCTTATCATGGATACTCTGGGAGCGCTGGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGAACTCCAGTGGGTCGAAGgtcagaatttttatttttct-gattattattggggacttatatattattgtagggt-tgcacagtgcttggaaaattagtgtcaacacagttggaaagccaa-----------

upper sequence: AT4G29900.1 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: GLYMA15G18180.1 (Glycine max), 5'ss of exon 27
TCCTTTGGGTCAATCTTATAATGGATACTCTTGGGGCTCTTGCTTTAGCCACTGAGCCACCAACCGATCACTTAATGGATCGAGCGCCTGTTGGCAGAAGgtaccacttcttatcagact--tgagcat-gcgtgttaagtcttgttcaactatagagtgctctcagtttctcttcaatttgcacaataattggatttatcttttgctctcag
| |||||||| |||||||| ||||||||||| || || || ||  | || ||||| |||||||| |||||| | ||||||||| | || || ||  ||||||   | || ||||    ||  | |  || | ||  ||    |  |   | |  |      |   |  || |  |    ||||||| |  |||||    |             
TTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGATCCCCAGTGGGTCGAAGgtcagagtttttatttttctgattattattgggtactacagatcatggcatttcatttgtttgctatattattgtagggttgcacagtgtttggaaaatt-------------

upper sequence: AT4G29900.1 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 5'ss of exon 30
TCCTTTGGGTCAATCTTATAATGGATACTCTTGGGGCTCTTGCTTTAGCCACTGAGCCACCAACCGATCACTTAATGGATCGAGCGCCTGTTGGCAGAAGgtaccacttcttatcagacttgagcatgcgtgttaagtcttgttcaactatagagtgctctcagtttctcttcaatttgcacaataattggatttatcttttgctctcag
|||| ||||| |||||||| |||||||||||||| || ||||| || |||||||| |||||||| |||||| | ||| |  |  | || |||||  |||||||  | || || |   |  |  | |       ||| |  |||| |   |   ||||     |  ||   |   || ||  |    |   | |||   || |||| ||| 
TCCTCTGGGTTAATCTTATCATGGATACTCTTGGAGCACTTGCATTGGCCACTGAACCACCAACAGATCACCTGATGCACAGGCCTCCAGTTGGTCGAAGgta--attttttttttaatgttgggagatccaataaatactgtttataaactaagtg---gaaaattgggtcagatctgtccctgga---ggtttgaattgtgct-tca-

upper sequence: AT4G29900.1 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: EFJ22392 (Selaginella moellendorffii), 5'ss of exon 24
TCCTTTGGGTCAATCTTATAATGGATACTCTTGGGGCTCTTGCTTTAGCCACTGAGCCACCAACCGATCACTTAATGGATCGAGCGCCTGTTGGCAGAAGgtaccacttcttatcagacttgagcatgcgtgttaagtcttgttcaactatagagtgctctcagtttctcttcaatttgcacaataattggatttatcttttgctctcag
| |||||||| |||||||| ||||||||| | || || || |||||||||||||| ||||| || ||  ||||||||||| |  |||| || ||  | ||||             ||||  | |  |     |  | ||  ||||   ||  | ||||  |  ||||   ||||                                    
TGCTTTGGGTAAATCTTATTATGGATACTTTGGGAGCGCTCGCTTTAGCCACTGAACCACCTACAGACGACTTAATGGATAGGCCGCCCGTGGGACGCAGgt------------tagacacgggtgtct---tctactcgagttc--ttaatgcgtgcattt-gttttgtttcag-----------------------------------

upper sequence: AT4G29900.1 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: EFJ25508 (Selaginella moellendorffii), 5'ss of exon 25
TCCTTTGGGTCAATCTTATAATGGATACTCTTGGGGCTCTTGCTTTAGCCACTGAGCCACCAACCGATCACTTAATGGATCGAGCGCCTGTTGGCAGAAGgtaccacttcttatcagacttgagcatgcgtgttaagtcttgttcaactatagagtgctctcagtttctcttcaatttgcacaataattggatttatcttttgctctcag
| |||||||| |||||||| ||||||||| | || || || |||||||||||||||||||| || ||  ||||||||||| |  |||| || ||  | ||||             ||||  | |  |     |  | ||  ||||   ||  | ||||  |  ||||   ||||                                    
TGCTTTGGGTAAATCTTATTATGGATACTTTGGGAGCGCTCGCTTTAGCCACTGAGCCACCTACAGACGACTTAATGGATAGGCCGCCCGTGGGACGCAGgt------------tagacacgggtgtct---tctactcgagttc--ttaatgcgtgcattt-gttttgtttcag-----------------------------------

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|125029257|gb|EL101526.1|EL101526
EST:     ACTGAGCCACCAACCGATCACTTAATGGATCGAGCGCCTGTTGGCAGAAG                         AGAACCTCTCATC
genomic: ACTGAGCCACCAACCGATCACTTAATGGATCGAGCGCCTGTTGGCAGAAGgtaccacttc ... ttgctctcagAGAACCTCTCATC
EST: gi|124752090|gb|EH842220.1|EH842220
EST:     ATCGAGCGCCTGTTGGCAGAAG                         AGAACCTCTCATCACAAATATCATGTGGAGAAACTTGTTTATACAA
genomic: ATCGAGCGCCTGTTGGCAGAAGgtaccacttc ... ttgctctcagAGAACCTCTCATCACAAATATCATGTGGAGAAACTTGTTTATACAA