Variant report

Variant	rs16867107
Chromosome Location	chr2:9793261-9793262
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:9636239..9638571-chr2:9793118..9795513,2	K562	blood:
2	chr2:9769830..9773614-chr2:9790561..9793295,3	MCF-7	breast:
3	chr2:9792147..9794483-chr2:9799893..9802301,3	K562	blood:
4	chr2:9769294..9772872-chr2:9790798..9795039,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000134308	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10185981	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12615784	1.00[CHB][hapmap];0.83[CHD][hapmap];0.96[GIH][hapmap];0.90[JPT][hapmap];0.92[MEX][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13418911	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16867105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16867106	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4622693	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4668627	0.99[ASN][1000 genomes]
rs4669405	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4669406	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4669407	0.88[CHB][hapmap];0.83[CHD][hapmap];0.89[GIH][hapmap];0.80[JPT][hapmap];0.99[ASN][1000 genomes]
rs55886075	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58645709	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61520432	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66484704	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66493547	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67630365	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67988353	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68170954	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72777064	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72777070	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7607750	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7608996	0.95[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs951629	0.85[CHD][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv580915	chr2:9308148-9844178	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
2	nsv1011802	chr2:9766171-9808284	Enhancers Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:9789400-9796600	Weak transcription	Gastric	stomach
2	chr2:9789400-9797600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr2:9789600-9794400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr2:9789600-9795800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr2:9789600-9796400	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr2:9789800-9794400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr2:9790800-9794600	Weak transcription	Placenta	Placenta
8	chr2:9790800-9797400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr2:9790800-9799200	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr2:9790800-9801000	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr2:9791000-9794400	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr2:9791000-9794400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr2:9791000-9794800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr2:9792400-9793600	Enhancers	Brain Substantia Nigra	brain
15	chr2:9792400-9795200	Enhancers	Brain Angular Gyrus	brain
16	chr2:9792400-9795600	Enhancers	Brain Anterior Caudate	brain
17	chr2:9792600-9793400	Enhancers	Brain Cingulate Gyrus	brain
18	chr2:9792600-9793800	Enhancers	Brain Germinal Matrix	brain
19	chr2:9792600-9793800	Enhancers	Fetal Heart	heart
20	chr2:9792600-9794000	Enhancers	Brain Hippocampus Middle	brain
21	chr2:9792600-9794800	Enhancers	Ovary	ovary
22	chr2:9792600-9795000	Enhancers	Brain Inferior Temporal Lobe	brain
23	chr2:9792600-9795200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr2:9792800-9794000	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr2:9792800-9794200	Enhancers	HepG2	liver
26	chr2:9792800-9795400	Enhancers	GM12878-XiMat	blood
27	chr2:9792800-9801600	Weak transcription	Spleen	Spleen
28	chr2:9793000-9794400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr2:9793000-9794800	Enhancers	A549	lung
30	chr2:9793200-9794000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links