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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTGTGGACACAGCTCTGAAAAACATTGGGATTGATGAACGTGTTCCTTACAATGCCCCATTGATTCAATTCTCTTCGTGGATGGGCGGTGATCGTGATGgtacatgcgtttttttggattactggcaaacgaatcactctcttgttttctcttgttcaccctctaatcgtcgtatctgaatttcag

Basic information

species Arabidopsis thaliana
transcript AT3G14940.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G14940.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 5'ss of exon 4
CGTGTGGACACAGCTCTGAAAAACATTGGGATTGATGAACGTGTTCCTTACAATGCCCCATTGATTCAATTCTCTTCGTGGATGGGCGGTGATCGTGATGgtacatgcgtttttttggattactggcaaacgaatcactctcttgttttctcttgttcaccctctaatcgtcgtatctgaatttcag
||| ||||||| ||  |||| ||||| || |||||||| ||||||||||| ||||| ||  | ||||| |||||||| |||||||| || || ||||||||||         |      | |||     |    ||| | ||||||   |  ||  | |   | |   | | | | |  |||||   
CGTCTGGACACTGCCTTGAAGAACATCGGAATTGATGAGCGTGTTCCTTATAATGCACCTCTCATTCAGTTCTCTTCTTGGATGGGAGGAGACCGTGATGgtatgcaaaggatggcttttgacttctgtatagttcagt-tcttgtg--catttaataattttgtg--cattgcacc--aatttag-

upper sequence: AT3G14940.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 5'ss of exon 4
CGTGTGGACACAGCTCTGAAAAACATTGGGATTGATGAACGTGTTCCTTACAATGCCCCATTGATTCAATTCTCTTCGTGGATGGGCGGTGATCGTGATGgt-----acatgcgtttttttggattactggcaaacgaatcactctcttgttttctcttgttca-------ccctctaatcgtcgtatctgaatttcag-------------------------------------------------------
|||||||| || ||  |||| ||||| || || || || ||||||||||||||||| ||  | ||||| ||||| || |||||||| || ||||||||||||     ||||   | ||||    ||  |    | |      |  | |   |   |   |  ||       | || ||   || || | | |||| |                                                         
CGTGTGGATACTGCATTGAAGAACATCGGTATCGACGAGCGTGTTCCTTACAATGCTCCTCTTATTCAGTTCTCGTCTTGGATGGGAGGAGATCGTGATGgtgagaaacatatctattttgttgttggttcttagcactatgccttataaataattacagcacaatgaatcctctttagatgttgtctttaaattactaccacttaggagataccatgtctgtatgcactctaaatttcaaatgacctttacag

upper sequence: AT3G14940.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G473001_T02 (Zea mays), 5'ss of exon 3
CGTGTGGACACAGCTCTGAAAAACATTGGGATTGATGAACGTGTTCCTTACAATGCCCCATTGATTCAATTCTCTTCGTGGATGGGCGGTGATCGTGATGgtacatg---cgtttt------tttggattactggcaaacga-atcactct---cttgttttctcttgttcaccctcta--atcgtcgtatctgaatttcag------------------------------------------------------------------------------
|| || || || ||  |||| |||||||||||| | || ||||||||||||||||| ||  | |||||||||||||| |||||||| || ||||||||||||   ||   | | |       ||||  ||     |  | |  || |   |     ||   | | |    ||||   ||  ||| | || |||     | ||                                                                              
CGGGTTGATACTGCATTGAAGAACATTGGGATTAACGAGCGTGTTCCTTACAATGCACCTCTTATTCAATTCTCTTCTTGGATGGGGGGAGATCGTGATGgtgagtgacacatctctacatatttgtcttgtcttctcatggcattatattaaatatgcagtatttgcagcacctattattatctttgtttctagtggttaggaagatgattattcattgtgcctgtgtctgcggtttgcacctctgtcctattctaaagcaatgtctctacaaatgcag

upper sequence: AT3G14940.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv12s0028g02180.t01 (Vitis vinifera), 5'ss of exon 4
CGTGTGGACACAGCTCTGAAAAACATTGGGATTGATGAACGTGTTCCTTACAATGCCCCATTGATTCAATTCTCTTCGTGGATGGGCGGTGATCGTGATGgtacatgcgtttttttgga--ttactggcaaacgaatcactctcttgttttctcttgttc-----accctctaatcgtcgtatctgaatttcag------
||||| || |||||| |||| ||||| || || ||||||||||||||||| ||||||||  | ||||| || ||||| |||||||| || ||||||||||||| |  | ||||     |    | ||   | |  |   |   ||   ||||| |  |       |     | |  || || | |  |||          
CGTGTTGATACAGCTTTGAAGAACATAGGCATAGATGAACGTGTTCCTTATAATGCCCCCCTTATTCAGTTTTCTTCTTGGATGGGTGGGGATCGTGATGgtataatccttttcagacaacccattgatgagcatactccctcctgcatttctttcatagctgagaaagattcaatgttgtctatacattgtttcatttt

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|86073317|gb|DR369074.1|DR369074
EST:     CAATGCCCCATTGATTCAATTCTCTTCGTGGATGGGCGGTGATCGTGATG                         GTAATCCGAGGGTCACACCTGAGGTCACTAGAGATGTGTGCTTGTTGGCTA
genomic: CAATGCCCCATTGATTCAATTCTCTTCGTGGATGGGCGGTGATCGTGATGgtacatgcgt ... tgaatttcagGTAATCCGAGGGTCACACCTGAGGTCACTAGAGATGTGTGCTTGTTGGCTA