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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacttctttaaattttaatttctctctccctttggcttacacagagtttctcctttttatcatgtatatgtctttacacgtgaagtgaacattcttctagGCCTTGTCTGTTGGAATATTCCCATATGTGCTGAAGCTTCTGCAAACAACAACGAATGAGCTAAGACAGATCCTGGTTTTCATATGGACAAAAATTCTTG

Basic information

species Arabidopsis thaliana
transcript AT3G08850.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 11
gtatacttctttaaattttaatttctct-ctccctttggcttacacagagtttctcctttttatcatgtatatgtctttaca-cgtgaagtgaacattcttc-----tagGCCTTGTCTGTTGGAATATTCCCATATGTGCTGAAGCTTCTGCAAACAACAACGAATGAGCTAAGACAGATCCTGGTTTTCATATGGACAAAAATTCTTG
   || || ||    | | ||||  ||  ||    |||   |    | |  |  |  ||| ||  | || ||||   | | | | |||    ||  || ||      ||||| || ||||||||||||||||||||||| || |||||  | |||||||||||    || ||| |||||||||| || |||||||||||||| |||||||
--gtaatttttc---tctcaattcatcaacttttgttgcaattgttatacctatttatttataaaaggtttatggtatgataacttgatactaagtttttttatatgtagGCATTATCTGTTGGAATATTCCCATATGTTCTAAAGCTGTTACAAACAACAACACCAGAACTACGACAGATCCTTGTATTCATATGGACAAAGATTCTTG

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA09G41510.1 (Glycine max), 3'ss of exon 11
gta-tacttctttaaattt-taatttctctctccctttggcttacacagagtttctcctttttatcatgtatatgtctttaca-cgtgaagtgaacattcttct----agGCCTTGTCTGTTGGAATATTCCCATATGTGCTGAAGCTTCTGCAAACAACAACGAATGAGCTAAGACAGATCCTGGTTTTCATATGGACAAAAATTCTTG
||| |  |||| | ||||  | |  | |   | |  |||  ||||  |       |  ||| ||  | || ||||   | | | | |||     |  || || |    |||| || |||||||||||||| |||||||| || |||||  | |||||||||||    || ||| | |||||||| || |||||||||||||| |||||||
gtaatttttctctcaattcatcaacttttgttgctattgttttaccta------tttatttataaaaggtttatggtgtgataacttgatacctatttttttatatgtagGCATTATCTGTTGGAATATTTCCATATGTTCTAAAGCTGTTACAAACAACAACACCCGAACTACGCCAGATCCTTGTATTCATATGGACAAAGATTCTTG

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 3'ss of exon 11
gtatacttctttaaattttaatttctctctccctttggcttacacagagtttctcctttttatcatgtatatgtctttacacgtgaagtgaacattcttctagGCCTTGTCTGTTGGAATATTCCCATATGTGCTGAAGCTTCTGCAAACAACAACGAATGAGCTAAGACAGATCCTGGTTTTCATATGGACAAAAATTCTTG
                  || ||  |  |  | |||   || ||     |||    ||   |  ||||  || | |||     ||  ||     | |||  ||||| |||| ||||||||||| |||||||| ||||||||  |||||||||||||    ||  ||||||| || || || || ||||||||||| || ||||
-----------------gtagttattggcatcatttccatttcatttctttttctgttcacaatatgtg-atttatttgattatggggtattgttccttgcagGCCCTGTCCGTTGGAATATTTCCATATGTTCTGAAGCTGTTGCAAACAACAACTCCAGAATTAAGACAAATTCTTGTATTTATATGGACAAAGATCCTTG

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|116411083|gb|EG453675.1|EG453675
EST:     TTGTACTTCTTGGAAGATTTCTTGATATGGGTTCATGGGCTGTGGATCTG                         GCCTTGTCTGTTGGAATATTCCCATATGTGCTGAAGCTTCTGCAAACAACA
genomic: TTGTACTTCTTGGAAGATTTCTTGATATGGGTTCATGGGCTGTGGATCTGgtatacttct ... attcttctagGCCTTGTCTGTTGGAATATTCCCATATGTGCTGAAGCTTCTGCAAACAACA
EST: gi|116411080|gb|EG453672.1|EG453672
EST:     TTGTACTTCTTGGA-GATTTCTTGATATGGGTTCATGGGCTGTGGATCTG                         GCCTTGTCTGTTGGAATATTCC
genomic: TTGTACTTCTTGGAAGATTTCTTGATATGGGTTCATGGGCTGTGGATCTGgtatacttct ... attcttctagGCCTTGTCTGTTGGAATATTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttctcctttttatcatgtatatgtctttacacgtgaagtgaacattcttctagGCCTTGTCTGTTGGAATATTCCCATATGTGCTGAAGCTTCTGCAAACAACAACGAATGAGCTAAGACAGATCCTGGTTTTCATATGGACAAAAATTCTTG
                                            cattcttct  CT-rich tract
        tttttatcatgtatat  TA-rich tract