Variant report

Variant	rs6925118
Chromosome Location	chr6:143165488-143165489
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:143164077..143167005-chr6:143171548..143173289,2	K562	blood:
2	chr6:143164226..143166914-chr6:143265951..143267932,2	MCF-7	breast:
3	chr6:143161057..143162645-chr6:143163973..143165505,2	K562	blood:
4	chr20:45985147..45987489-chr6:143164648..143166679,2	MCF-7	breast:
5	chr6:143160497..143162652-chr6:143164958..143167111,2	MCF-7	breast:
6	chr6:143148679..143151858-chr6:143163434..143166597,3	K562	blood:
7	chr6:143149262..143152050-chr6:143165097..143166681,2	K562	blood:

Variant related genes	Relation type
ENSG00000101040	Chromatin interaction
ENSG00000010818	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11155265	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11969311	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12190015	0.88[CHB][hapmap];0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs12190804	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12192692	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12194338	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12194808	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12196693	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12199711	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12201734	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12201987	0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12203708	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12205948	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12206012	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12208876	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12210048	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12210301	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12214573	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17444447	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2142938	0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2184364	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2876528	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4349826	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4492208	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62430707	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62430709	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62430712	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62430713	0.87[EUR][1000 genomes]
rs62432360	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62432362	0.86[EUR][1000 genomes]
rs6905453	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6910072	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6912129	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6927858	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs728589	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72990282	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72995085	0.80[EUR][1000 genomes]
rs7758383	0.89[ASN][1000 genomes]
rs972119	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs998313	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[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	nsv830829	chr6:143058408-143218077	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 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	chr6:143144000-143165800	Weak transcription	Liver	Liver
2	chr6:143144800-143166800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:143149200-143166000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr6:143149600-143165600	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:143161000-143165800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:143161000-143166000	Weak transcription	Pancreas	Pancrea
7	chr6:143161200-143165800	Weak transcription	Fetal Heart	heart
8	chr6:143161400-143165600	Weak transcription	Fetal Intestine Large	intestine
9	chr6:143161400-143165600	Weak transcription	Fetal Intestine Small	intestine
10	chr6:143161400-143165600	Weak transcription	Small Intestine	intestine
11	chr6:143161400-143166000	Weak transcription	Hela-S3	cervix
12	chr6:143162400-143165600	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr6:143162400-143166400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
14	chr6:143162400-143166400	Enhancers	Brain Anterior Caudate	brain
15	chr6:143162400-143166800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:143162600-143166800	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr6:143162600-143166800	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr6:143162800-143166600	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr6:143163000-143165600	Enhancers	Fetal Brain Male	brain
20	chr6:143163000-143166800	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr6:143163000-143167400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
22	chr6:143163000-143167800	Flanking Active TSS	Primary T cells from cord blood	blood
23	chr6:143163400-143166200	Enhancers	HepG2	liver
24	chr6:143163600-143166000	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr6:143163600-143166800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:143163800-143166000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:143163800-143166000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr6:143163800-143166400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
29	chr6:143164000-143166000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr6:143164000-143166200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr6:143164000-143166400	Enhancers	Brain Hippocampus Middle	brain
32	chr6:143164200-143165600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
33	chr6:143164200-143165600	Weak transcription	Aorta	Aorta
34	chr6:143164200-143165800	Weak transcription	Left Ventricle	heart
35	chr6:143164200-143165800	Weak transcription	Rectal Smooth Muscle	rectum
36	chr6:143164200-143166200	Flanking Active TSS	GM12878-XiMat	blood
37	chr6:143164200-143166600	Enhancers	HMEC	breast
38	chr6:143164200-143166800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr6:143164200-143167200	Enhancers	Primary hematopoietic stem cells short term culture	blood
40	chr6:143164200-143167600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
41	chr6:143164200-143168400	Enhancers	Fetal Thymus	thymus
42	chr6:143164400-143165600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr6:143164400-143165600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr6:143164400-143165600	Enhancers	Primary B cells from peripheral blood	blood
45	chr6:143164400-143165600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr6:143164400-143165600	Enhancers	Duodenum Smooth Muscle	Duodenum
47	chr6:143164400-143165600	Weak transcription	Fetal Lung	lung
48	chr6:143164400-143165600	Weak transcription	Stomach Smooth Muscle	stomach
49	chr6:143164400-143165600	Enhancers	NHLF	lung
50	chr6:143164400-143165800	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links