Variant report

Variant	rs6921180
Chromosome Location	chr6:64381461-64381462
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:64345767..64348847-chr6:64379987..64384270,3	K562	blood:
2	chr6:64380808..64382949-chr6:64384365..64385905,2	K562	blood:
3	chr6:64380122..64383358-chr6:64384365..64386377,3	K562	blood:
4	chr6:64376354..64377916-chr6:64381170..64383377,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000118482	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10455430	0.85[ASN][1000 genomes]
rs10485358	0.83[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1057530	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10755432	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10943975	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1212828	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12190601	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12198142	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12205302	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1575054	0.92[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs170347	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.81[ASN][1000 genomes]
rs1884117	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1889096	0.85[ASN][1000 genomes]
rs319920	0.92[ASW][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs319923	0.81[ASN][1000 genomes]
rs319924	0.92[ASW][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs319925	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.81[ASN][1000 genomes]
rs4562122	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4710437	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4710440	0.83[ASW][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.89[YRI][hapmap]
rs62412950	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs67875483	0.82[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs6921058	0.80[ASN][1000 genomes]
rs6932538	0.92[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7767473	0.92[CEU][hapmap];0.90[CHB][hapmap];0.91[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830674	chr6:64355412-64535801	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64347000-64383200	Weak transcription	Esophagus	oesophagus
2	chr6:64347000-64422400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:64347800-64386400	Weak transcription	Colonic Mucosa	Colon
4	chr6:64350200-64382800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr6:64351200-64385000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:64351200-64405000	Weak transcription	Thymus	Thymus
7	chr6:64354000-64421200	Weak transcription	Gastric	stomach
8	chr6:64354200-64383600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:64355200-64381600	Weak transcription	Fetal Intestine Small	intestine
10	chr6:64357800-64393400	Weak transcription	Placenta	Placenta
11	chr6:64358400-64382800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr6:64363200-64382800	Weak transcription	Fetal Muscle Leg	muscle
13	chr6:64365200-64387000	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr6:64365400-64386400	Weak transcription	Spleen	Spleen
15	chr6:64365800-64409400	Weak transcription	Fetal Stomach	stomach
16	chr6:64366600-64382400	Weak transcription	Fetal Lung	lung
17	chr6:64368000-64381800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr6:64370800-64383000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr6:64370800-64383400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:64370800-64395000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr6:64370800-64413400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr6:64371000-64394200	Weak transcription	Stomach Smooth Muscle	stomach
23	chr6:64371000-64409000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr6:64371400-64383200	Weak transcription	Primary hematopoietic stem cells	blood
25	chr6:64371400-64383200	Weak transcription	Liver	Liver
26	chr6:64373600-64382600	Weak transcription	Ovary	ovary
27	chr6:64373800-64383400	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr6:64373800-64384600	Weak transcription	Adipose Nuclei	Adipose
29	chr6:64373800-64386400	Weak transcription	Pancreas	Pancrea
30	chr6:64373800-64394200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr6:64373800-64394600	Weak transcription	HSMMtube	muscle
32	chr6:64373800-64394800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr6:64374000-64384400	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr6:64374000-64384600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr6:64374000-64384800	Weak transcription	Brain Cingulate Gyrus	brain
36	chr6:64374000-64386200	Weak transcription	NHDF-Ad	bronchial
37	chr6:64374000-64387200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr6:64374000-64391600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr6:64374200-64384400	Weak transcription	Brain Hippocampus Middle	brain
40	chr6:64374200-64384400	Weak transcription	Colon Smooth Muscle	Colon
41	chr6:64374200-64385400	Weak transcription	Brain Anterior Caudate	brain
42	chr6:64374200-64386400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr6:64374200-64386400	Weak transcription	Right Atrium	heart
44	chr6:64374200-64387000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr6:64374200-64393400	Weak transcription	HSMM	muscle
46	chr6:64374200-64394000	Weak transcription	NH-A	brain
47	chr6:64374200-64394200	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr6:64374200-64405800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr6:64374200-64414600	Weak transcription	HMEC	breast
50	chr6:64374400-64382800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links