Variant report

Variant	rs6664674
Chromosome Location	chr1:224302445-224302446
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:224301465..224303000-chr1:224620703..224623446,2	K562	blood:
2	chr1:224301568..224304233-chr1:224516678..224521021,7	MCF-7	breast:
3	chr1:224300829..224303053-chr1:224369472..224372249,3	K562	blood:
4	chr1:224295165..224298323-chr1:224300188..224302946,3	K562	blood:
5	chr1:224299141..224303224-chr1:224514971..224520507,6	MCF-7	breast:
6	chr1:224301937..224302708-chr6:27115017..27115572,2	Hela-S3	cervix:
7	chr1:224300372..224302965-chr1:224620010..224622203,2	K562	blood:
8	chr1:224300672..224304210-chr1:224370293..224374026,4	K562	blood:
9	chr1:224301518..224303239-chr1:224517881..224519939,3	K562	blood:
10	chr1:224293723..224297684-chr1:224300401..224303649,6	MCF-7	breast:
11	chr1:224301888..224304582-chr1:224366795..224368300,2	MCF-7	breast:
12	chr1:224302275..224304039-chr1:224543253..224546119,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000143771	Chromatin interaction
ENSG00000252484	Chromatin interaction
ENSG00000162923	Chromatin interaction
ENSG00000201898	Chromatin interaction
ENSG00000265565	Chromatin interaction
ENSG00000143753	Chromatin interaction
ENSG00000143786	Chromatin interaction
ENSG00000143748	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10158843	1.00[EUR][1000 genomes]
rs10753448	0.80[AFR][1000 genomes]
rs11801211	1.00[EUR][1000 genomes]
rs12025911	1.00[EUR][1000 genomes]
rs12027762	1.00[EUR][1000 genomes]
rs12040996	1.00[EUR][1000 genomes]
rs12047952	1.00[EUR][1000 genomes]
rs12239235	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12239466	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13375296	1.00[EUR][1000 genomes]
rs1401319	1.00[EUR][1000 genomes]
rs1586888	0.80[AFR][1000 genomes]
rs1602706	0.80[AFR][1000 genomes]
rs16842291	1.00[EUR][1000 genomes]
rs16842341	1.00[EUR][1000 genomes]
rs16846190	1.00[EUR][1000 genomes]
rs16846212	1.00[EUR][1000 genomes]
rs16846293	1.00[EUR][1000 genomes]
rs16846494	1.00[EUR][1000 genomes]
rs1890119	1.00[EUR][1000 genomes]
rs2035897	0.80[AFR][1000 genomes]
rs2068945	1.00[EUR][1000 genomes]
rs2404844	0.80[AFR][1000 genomes]
rs2404845	0.80[AFR][1000 genomes]
rs2404846	0.80[AFR][1000 genomes]
rs2404847	0.80[AFR][1000 genomes]
rs28458390	1.00[EUR][1000 genomes]
rs28684725	1.00[EUR][1000 genomes]
rs2896986	0.80[AFR][1000 genomes]
rs41345146	1.00[EUR][1000 genomes]
rs4353057	0.80[AFR][1000 genomes]
rs4653956	0.80[AFR][1000 genomes]
rs56947789	1.00[EUR][1000 genomes]
rs57380389	1.00[EUR][1000 genomes]
rs57469223	1.00[EUR][1000 genomes]
rs58090997	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs58788859	1.00[EUR][1000 genomes]
rs58954846	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59433589	1.00[EUR][1000 genomes]
rs59561838	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59793743	1.00[EUR][1000 genomes]
rs59819476	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs59948383	1.00[EUR][1000 genomes]
rs59970447	1.00[EUR][1000 genomes]
rs60715845	1.00[EUR][1000 genomes]
rs60831135	1.00[EUR][1000 genomes]
rs61056357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61144016	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs61162360	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61347348	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6426108	0.80[AFR][1000 genomes]
rs6426112	0.80[AFR][1000 genomes]
rs6426167	1.00[EUR][1000 genomes]
rs6659249	0.80[AFR][1000 genomes]
rs6671784	0.80[AFR][1000 genomes]
rs6687331	0.83[AFR][1000 genomes]
rs6702019	0.80[AFR][1000 genomes]
rs73114413	1.00[EUR][1000 genomes]
rs73122500	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73124453	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs73124468	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73124491	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73124493	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73126411	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73126416	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs73127450	1.00[EUR][1000 genomes]
rs73128442	1.00[EUR][1000 genomes]
rs7515215	1.00[EUR][1000 genomes]
rs7526301	0.80[AFR][1000 genomes]
rs7535007	0.80[AFR][1000 genomes]
rs908796	0.80[AFR][1000 genomes]
rs937155	0.80[AFR][1000 genomes]
rs969008	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757772	chr1:223935220-224363163	Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	esv2759000	chr1:223935220-224363163	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv427941	chr1:224085052-224363163	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv832692	chr1:224206536-224407717	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv873222	chr1:224292898-224335422	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224301200-224302600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr1:224301200-224302600	Active TSS	Brain Angular Gyrus	brain
3	chr1:224301200-224302600	Active TSS	Brain Anterior Caudate	brain
4	chr1:224301200-224302600	Active TSS	Duodenum Smooth Muscle	Duodenum
5	chr1:224301200-224302600	Active TSS	Osteobl	bone
6	chr1:224301200-224302800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
7	chr1:224301200-224302800	Active TSS	Brain Substantia Nigra	brain
8	chr1:224301200-224303000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr1:224301200-224303000	Active TSS	Brain Hippocampus Middle	brain
10	chr1:224301200-224303000	Active TSS	Brain Inferior Temporal Lobe	brain
11	chr1:224301200-224303000	Active TSS	Fetal Brain Female	brain
12	chr1:224301200-224303000	Active TSS	Pancreatic Islets	Pancreatic Islet
13	chr1:224301200-224303000	Active TSS	A549	lung
14	chr1:224301200-224303200	Active TSS	Stomach Smooth Muscle	stomach
15	chr1:224301200-224303400	Active TSS	HUES48 Cell Line	embryonic stem cell
16	chr1:224301200-224303600	Active TSS	Rectal Mucosa Donor 29	rectum
17	chr1:224301200-224304000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr1:224301200-224304000	Active TSS	NHLF	lung
19	chr1:224301200-224304400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr1:224301200-224304400	Active TSS	Right Atrium	heart
21	chr1:224301400-224302600	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr1:224301400-224302600	Active TSS	Primary T killer memory cells from peripheral blood	blood
23	chr1:224301400-224302600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr1:224301400-224302600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
25	chr1:224301400-224302600	Active TSS	Fetal Adrenal Gland	Adrenal Gland
26	chr1:224301400-224302600	Active TSS	Fetal Brain Male	brain
27	chr1:224301400-224302600	Active TSS	Fetal Stomach	stomach
28	chr1:224301400-224302600	Active TSS	Thymus	Thymus
29	chr1:224301400-224302800	Active TSS	Aorta	Aorta
30	chr1:224301400-224302800	Active TSS	Fetal Muscle Trunk	muscle
31	chr1:224301400-224302800	Active TSS	Psoas Muscle	Psoas
32	chr1:224301400-224302800	Active TSS	Right Ventricle	heart
33	chr1:224301400-224302800	Active TSS	Stomach Mucosa	stomach
34	chr1:224301400-224302800	Active TSS	HSMM	muscle
35	chr1:224301400-224303000	Active TSS	Brain Cingulate Gyrus	brain
36	chr1:224301400-224303000	Active TSS	Colonic Mucosa	Colon
37	chr1:224301400-224303000	Active TSS	Fetal Muscle Leg	muscle
38	chr1:224301400-224303000	Active TSS	Placenta	Placenta
39	chr1:224301400-224303000	Active TSS	Fetal Thymus	thymus
40	chr1:224301400-224303000	Active TSS	Ovary	ovary
41	chr1:224301400-224303200	Active TSS	H9 Cell Line	embryonic stem cell
42	chr1:224301400-224303200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr1:224301400-224303200	Active TSS	Duodenum Mucosa	Duodenum
44	chr1:224301400-224303200	Active TSS	HSMMtube	muscle
45	chr1:224301400-224303200	Active TSS	NHDF-Ad	bronchial
46	chr1:224301400-224303400	Active TSS	H1 Cell Line	embryonic stem cell
47	chr1:224301400-224303400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr1:224301400-224303400	Active TSS	Fetal Intestine Large	intestine
49	chr1:224301400-224303600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr1:224301400-224303600	Active TSS	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links