Variant report

Variant	rs4896492
Chromosome Location	chr6:140170157-140170158
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs17811355	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2144165	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2179996	1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2207334	0.81[AMR][1000 genomes]
rs3918473	0.87[YRI][hapmap];0.81[AMR][1000 genomes]
rs3946063	1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs4554334	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4896490	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4896491	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4896493	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55772636	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6917808	0.87[YRI][hapmap];0.81[AMR][1000 genomes]
rs73778053	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73778057	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73778058	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73778065	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7745714	0.87[AFR][1000 genomes]
rs7750105	1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv830820	chr6:140059279-140255292	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	nsv1017015	chr6:140084137-140300565	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1019407	chr6:140087307-140304334	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1022881	chr6:140098646-140172570	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140168400-140174000	Weak transcription	Fetal Lung	lung
2	chr6:140168600-140170200	Enhancers	Monocytes-CD14+_RO01746	blood
3	chr6:140168800-140173400	Weak transcription	Duodenum Mucosa	Duodenum
4	chr6:140168800-140177000	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr6:140169000-140177000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr6:140169200-140173400	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:140169600-140173400	Weak transcription	Colon Smooth Muscle	Colon
8	chr6:140169800-140172200	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:140170000-140172200	Weak transcription	Fetal Intestine Large	intestine

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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