Variant report

Variant	rs7770106
Chromosome Location	chr6:144866705-144866706
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:144864923..144867106-chr6:144874240..144876949,2	K562	blood:
2	chr6:144865656..144868060-chr6:146055980..146058082,2	K562	blood:
3	chr6:144865762..144868928-chr6:144869239..144873744,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000270638	Chromatin interaction
ENSG00000112425	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10499231	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12195433	0.81[CEU][hapmap]
rs12205822	0.81[CEU][hapmap];0.81[TSI][hapmap]
rs1358433	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2091485	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2876586	0.87[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3793134	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3793135	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3812245	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3812246	0.87[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4499947	1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4896729	0.96[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6570637	0.96[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6915747	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6941915	0.80[EUR][1000 genomes]
rs7739143	0.80[CEU][hapmap];0.81[TSI][hapmap]
rs7749805	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7749957	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7754789	0.96[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7767389	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7770800	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9376822	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9390171	0.86[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9390173	1.00[GIH][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.92[EUR][1000 genomes]
rs9399478	0.96[CEU][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9399479	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9496995	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9497006	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs951571	0.92[CEU][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031253	chr6:144599055-144883013	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv538461	chr6:144599055-144883013	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1015228	chr6:144780458-144989321	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv538462	chr6:144780458-144989321	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144803400-144869800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:144807400-144904000	Weak transcription	Brain Substantia Nigra	brain
3	chr6:144812400-144881000	Weak transcription	Stomach Mucosa	stomach
4	chr6:144812600-144869800	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:144815200-144881000	Weak transcription	NHEK	skin
6	chr6:144816600-144881400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:144831400-144879000	Strong transcription	Primary B cells from cord blood	blood
8	chr6:144833800-144868200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr6:144837200-144880800	Weak transcription	Brain Angular Gyrus	brain
10	chr6:144844400-144870000	Weak transcription	Brain Hippocampus Middle	brain
11	chr6:144850200-144877400	Weak transcription	HMEC	breast
12	chr6:144850400-144903200	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr6:144850400-144903200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:144850400-144904200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:144850600-144870800	Weak transcription	Right Ventricle	heart
16	chr6:144850600-144881600	Weak transcription	Brain Anterior Caudate	brain
17	chr6:144852400-144870600	Weak transcription	Aorta	Aorta
18	chr6:144853600-144896400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr6:144854400-144873400	Weak transcription	Pancreas	Pancrea
20	chr6:144854600-144870000	Weak transcription	NH-A	brain
21	chr6:144854600-144881200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr6:144856000-144875800	Weak transcription	Fetal Heart	heart
23	chr6:144857200-144904000	Weak transcription	Psoas Muscle	Psoas
24	chr6:144858200-144867400	Strong transcription	Liver	Liver
25	chr6:144858200-144887800	Strong transcription	Primary B cells from peripheral blood	blood
26	chr6:144858600-144866800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:144858600-144879200	Strong transcription	Primary T cells fromperipheralblood	blood
28	chr6:144858600-144879400	Strong transcription	HepG2	liver
29	chr6:144858800-144868200	Strong transcription	Primary T helper naive cells from peripheral blood	blood
30	chr6:144858800-144868600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr6:144859600-144878600	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr6:144860000-144866800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr6:144860000-144866800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr6:144860000-144867200	Strong transcription	Fetal Muscle Trunk	muscle
35	chr6:144860000-144868400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr6:144860200-144867600	Strong transcription	Adipose Nuclei	Adipose
37	chr6:144860200-144868200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr6:144860200-144868200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr6:144860200-144879200	Strong transcription	Primary T helper cells PMA-I stimulated	--
40	chr6:144860400-144866800	Strong transcription	Dnd41	blood
41	chr6:144860400-144868400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr6:144860400-144868600	Strong transcription	Fetal Thymus	thymus
43	chr6:144860600-144866800	Strong transcription	Stomach Smooth Muscle	stomach
44	chr6:144860800-144869000	Strong transcription	Fetal Muscle Leg	muscle
45	chr6:144861000-144866800	Strong transcription	Primary hematopoietic stem cells	blood
46	chr6:144861000-144867400	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr6:144861000-144867600	Strong transcription	Ovary	ovary
48	chr6:144861000-144868200	Strong transcription	Left Ventricle	heart
49	chr6:144861000-144878400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr6:144861200-144867200	Weak transcription	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links