Variant report

Variant	rs7236410
Chromosome Location	chr18:9478947-9478948
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr18:9478939-9478976	GM12878	blood:	n/a	n/a
2	POLR2A	chr18:9478537-9478979	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:9474528..9476990-chr18:9477133..9478956,2	K562	blood:
2	chr18:9471240..9474381-chr18:9476825..9479081,3	K562	blood:

Variant related genes	Relation type
ENSG00000273335	TF binding region
ENSG00000273335	Chromatin interaction
ENSG00000017797	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11876700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12680	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12955301	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12958342	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12958352	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12965004	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs12965619	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12966136	0.85[EUR][1000 genomes]
rs12969608	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12970100	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16955222	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs16955240	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs16955247	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34361892	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34863209	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34870926	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34979461	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35062594	0.86[AMR][1000 genomes]
rs35189459	0.86[AMR][1000 genomes]
rs35833761	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs36064377	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs57539532	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs71362083	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7228633	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7231281	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7231656	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7232664	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs8085681	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs8096628	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8099656	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916373	chr18:9026803-9592201	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv1056407	chr18:9144345-9553764	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv1062025	chr18:9287249-9552470	Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv543643	chr18:9287249-9552470	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers 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	35 gene(s)	inside rSNPs	diseases
5	nsv833585	chr18:9401630-9597291	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv428005	chr18:9401658-9542396	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:9476600-9481800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr18:9476600-9481800	Weak transcription	Pancreas	Pancrea
3	chr18:9476600-9484200	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr18:9476800-9479600	Weak transcription	HSMMtube	muscle
5	chr18:9476800-9480400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr18:9476800-9481200	Weak transcription	Right Atrium	heart
7	chr18:9476800-9482400	Weak transcription	Brain Anterior Caudate	brain
8	chr18:9476800-9494000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr18:9476800-9496000	Weak transcription	Stomach Mucosa	stomach
10	chr18:9477000-9479600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr18:9477000-9480000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr18:9477000-9481400	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr18:9477000-9482400	Weak transcription	Primary T cells from cord blood	blood
14	chr18:9477000-9482400	Weak transcription	Right Ventricle	heart
15	chr18:9477000-9482800	Weak transcription	Brain Hippocampus Middle	brain
16	chr18:9477000-9483600	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr18:9477000-9485400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr18:9477000-9486000	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr18:9477000-9489800	Weak transcription	HUVEC	blood vessel
20	chr18:9477000-9514000	Weak transcription	NH-A	brain
21	chr18:9477200-9481800	Weak transcription	Stomach Smooth Muscle	stomach
22	chr18:9477200-9482000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr18:9477200-9482000	Weak transcription	Osteobl	bone
24	chr18:9477200-9482400	Weak transcription	Primary B cells from peripheral blood	blood
25	chr18:9477200-9482400	Weak transcription	Psoas Muscle	Psoas
26	chr18:9477200-9482400	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr18:9477200-9484200	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr18:9477200-9513800	Weak transcription	HSMM	muscle
29	chr18:9477400-9479200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr18:9477400-9479400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr18:9477400-9482400	Weak transcription	Adipose Nuclei	Adipose
32	chr18:9477400-9482400	Weak transcription	Brain Substantia Nigra	brain
33	chr18:9477400-9485000	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr18:9477400-9492400	Weak transcription	A549	lung
35	chr18:9477400-9493600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr18:9477600-9479800	Weak transcription	Primary B cells from cord blood	blood
37	chr18:9477600-9482400	Weak transcription	Brain Cingulate Gyrus	brain
38	chr18:9477600-9482800	Weak transcription	Rectal Smooth Muscle	rectum
39	chr18:9477600-9484000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr18:9477600-9484600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr18:9477600-9485000	Weak transcription	Liver	Liver
42	chr18:9477600-9485200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr18:9477600-9488000	Weak transcription	HepG2	liver
44	chr18:9477600-9491000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr18:9477600-9494400	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr18:9477800-9481800	Weak transcription	Colon Smooth Muscle	Colon
47	chr18:9477800-9482400	Weak transcription	Brain Angular Gyrus	brain
48	chr18:9477800-9482600	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr18:9477800-9484000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr18:9477800-9488600	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links