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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgttttttttccctgattcgttaatggagaatctctgttttgattggtctctctaacgatgtgctttgtttctcgtgtttttcaacttctcag

Basic information

species Arabidopsis thaliana
transcript AT4G35740.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G35740.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os02g54020.1 (Oryza sativa), 5'ss of exon 3
TGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgttttttttccctgattcgttaatggagaatctctgt-tttgattggtctctctaacgatgtgctttgtttctcgtgttt----ttcaacttctcag
|||||||| ||||||||||| ||||| |||||||| || || |||||||| |||||  |||  ||  | || || || |||||| | || || ||||| ||| |||   |        | | | |  ||    || ||     ||  ||||    | |   ||      |   || ||  |   |||      ||  || || ||
TGCTTTTGTTTGATGCCAACTGGAGGTGGAAAATCAATGTGCTATCAGATTCCTGCTCTAGTGAAGTCAGGCATTGTTCTTGTTATCTCACCCTTGATAGgtgaattgatccaccaaacttcagttatttccagaaaaaaatagtacttgacaaatgtgcatatactaatagcttcttgatatggttgaaaaatctgctgcttag

upper sequence: AT4G35740.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA09G08180.1 (Glycine max), 5'ss of exon 2
TGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatc-tgttttttttccctga--ttcgttaatgga--gaatctctgttttgattggt--ctctctaa---cgatgtgctttgtttctcgtgtttttcaacttctcag----------
|| |||||  | |||||||| |||||||| || ||||| ||||||||||| |||||||| || ||| | || || || ||||| || |  ||||| || ||| ||||   || || ||   | |  || || | |       | ||   |  || |||||   || || |      ||||||  |   |  ||| |||   |||| |             
TGTTTTTGTCTTATGCCAACTGGAGGAGGCAAGTCGATGTGTTATCAGATCCCTGCATTGGCAAAAGCAGGCATTGTGCTTGTCGTTTGCCCTTTAATAGgtgaatcacattcttcttttataaattttgtaactttttctgagcttattgctgcttggtaattcacttagttttgtgtgctaggacacatgtgatttctgacttttgttcctctgacag

upper sequence: AT4G35740.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv11s0016g00850.t01 (Vitis vinifera), 5'ss of exon 2
TGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatc-------tgttttttttccctgattcgttaatggagaatc------tctgttttgattggtctc---tctaacgatgt-gct----ttgtttctcgtgtttttcaacttctcag------
|| |||||  | |||||||| ||||||||||| || || ||||||||||| |||||| | || ||||| || || || || || || | |||||| || ||| |||        |||| | |     |||    |||  |||   |        ||    |  || || ||   |  || ||    |||    ||| || |  || || || | || |         
TGTTTTTGTCTCATGCCAACAGGAGGAGGAAAGTCAATGTGTTATCAGATTCCTGCACTGGCAAAACCAGGGATTGTGCTCGTGGTTTGTCCTTTAATAGgtgaatggtatttatgttatgtaattttgacatcttagaggaagcttaagccacctaagatttttcgtttcaaatgcaaggacacagctctaattgcttttgttggttctccattttttgctcacag

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|19876818|gb|AU237649.1|AU237649
EST:     ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTG                         CTTTGATG
genomic: ACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCCTTTGATTGgtaaatctgt ... aacttctcagCTTTGATG