Variant report

Variant	rs34173965
Chromosome Location	chr4:6975611-6975612
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:6974510..6976295-chr4:6983564..6986014,2	K562	blood:
2	chr4:6918088..6920742-chr4:6973003..6977658,4	MCF-7	breast:
3	chr4:6970136..6972569-chr4:6974039..6977282,3	MCF-7	breast:
4	chr4:6973834..6976602-chr4:7024841..7026449,2	K562	blood:
5	chr4:6970235..6972134-chr4:6974556..6976234,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10009332	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10013211	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10013696	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10015163	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10019256	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10022869	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10155208	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10937769	0.85[ASN][1000 genomes]
rs10937771	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11723686	0.86[ASN][1000 genomes]
rs11731681	0.85[ASN][1000 genomes]
rs12512922	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12648134	0.83[EUR][1000 genomes]
rs12650200	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12650264	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13140943	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17742611	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17743234	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2301820	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2301821	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28380685	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28392702	0.85[ASN][1000 genomes]
rs35490604	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35772786	0.84[EUR][1000 genomes]
rs3857168	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3857169	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3857170	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3892145	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3892976	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4234790	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4261987	0.83[ASN][1000 genomes]
rs4315786	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4346651	0.85[ASN][1000 genomes]
rs4484301	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4689571	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4689572	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56307635	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58935653	0.85[ASN][1000 genomes]
rs6831368	0.85[ASN][1000 genomes]
rs6834007	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7672632	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9291123	0.85[ASN][1000 genomes]
rs9790586	0.85[ASN][1000 genomes]
rs9999127	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878529	chr4:6883012-6983677	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv878530	chr4:6888932-7058473	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	esv34033	chr4:6973270-7390621	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 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	chr4:6955800-6976000	Weak transcription	Rectal Smooth Muscle	rectum
2	chr4:6956000-6976000	Weak transcription	Colon Smooth Muscle	Colon
3	chr4:6957600-6976000	Weak transcription	Fetal Lung	lung
4	chr4:6957800-6976000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr4:6958400-6975800	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr4:6964200-6976000	Weak transcription	Brain Germinal Matrix	brain
7	chr4:6965000-6976000	Weak transcription	A549	lung
8	chr4:6965200-6976000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr4:6965200-6976000	Weak transcription	Stomach Mucosa	stomach
10	chr4:6965200-6976200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr4:6965400-6976000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr4:6965400-6976000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr4:6965400-6976000	Weak transcription	NHLF	lung
14	chr4:6965400-6976200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr4:6965400-6987800	Weak transcription	Small Intestine	intestine
16	chr4:6966200-6976000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr4:6967000-6976000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr4:6967800-6976000	Weak transcription	Fetal Kidney	kidney
19	chr4:6968000-6987600	Weak transcription	HSMM	muscle
20	chr4:6968200-6976000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr4:6969600-6976000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr4:6969800-6985200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr4:6969800-6986000	Weak transcription	Left Ventricle	heart
24	chr4:6970600-6976000	Weak transcription	Aorta	Aorta
25	chr4:6970600-6976800	Weak transcription	Fetal Muscle Trunk	muscle
26	chr4:6970800-6976000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr4:6970800-6976000	Weak transcription	Adipose Nuclei	Adipose
28	chr4:6970800-6976000	Weak transcription	Pancreas	Pancrea
29	chr4:6970800-6976200	Weak transcription	Fetal Brain Female	brain
30	chr4:6970800-6985800	Weak transcription	Esophagus	oesophagus
31	chr4:6970800-6987800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr4:6971000-6976000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr4:6971600-6986400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr4:6971800-6976000	Weak transcription	Lung	lung
35	chr4:6972000-6976000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr4:6972000-6986000	Weak transcription	Right Ventricle	heart
37	chr4:6972200-6976000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr4:6972200-6976200	Weak transcription	Colonic Mucosa	Colon
39	chr4:6972400-6976000	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr4:6972400-6976000	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr4:6972400-6976800	Weak transcription	Gastric	stomach
42	chr4:6972400-6985800	Weak transcription	Duodenum Mucosa	Duodenum
43	chr4:6972400-6986000	Weak transcription	Ovary	ovary
44	chr4:6972600-6976200	Weak transcription	Stomach Smooth Muscle	stomach
45	chr4:6972800-6976200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr4:6972800-6985800	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr4:6973000-6976000	Weak transcription	Primary B cells from cord blood	blood
48	chr4:6973000-6976000	Weak transcription	Fetal Thymus	thymus
49	chr4:6973000-6976000	Weak transcription	Dnd41	blood
50	chr4:6973000-6976200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links