Variant report

Variant	rs11964790
Chromosome Location	chr6:149929663-149929664
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:149928230..149930786-chr6:149943944..149945512,2	K562	blood:
2	chr6:149921558..149923711-chr6:149928305..149931227,2	K562	blood:
3	chr6:149924500..149926478-chr6:149928275..149931154,2	K562	blood:

Variant related genes	Relation type
ENSG00000186625	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11963941	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964826	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087440	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087477	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087520	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087666	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35077558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35515786	1.00[AFR][1000 genomes]
rs56859590	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57065071	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57925355	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61666489	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6926725	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6926874	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6938702	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73602752	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73602754	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604736	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604737	0.90[AFR][1000 genomes]
rs73604743	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604754	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604776	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604779	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604781	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604784	1.00[AFR][1000 genomes]
rs73604790	1.00[AFR][1000 genomes]
rs73604795	1.00[AFR][1000 genomes]
rs73604799	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73606715	1.00[AFR][1000 genomes]
rs73606737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73606738	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7746594	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7771139	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7773304	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9689443	1.00[AFR][1000 genomes]
rs9766104	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9767369	0.88[AFR][1000 genomes];1.00[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	nsv289	chr6:149864898-149998818	Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv5534	chr6:149864898-149998818	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv886762	chr6:149866452-150174507	Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1794633	chr6:149903597-149944908	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv1792620	chr6:149909491-150083621	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 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	chr6:149889600-149931400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr6:149899200-149929800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr6:149909000-149935000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:149910000-149935200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:149915200-149935000	Weak transcription	Small Intestine	intestine
6	chr6:149915600-149935200	Weak transcription	Esophagus	oesophagus
7	chr6:149915600-149968400	Weak transcription	Pancreas	Pancrea
8	chr6:149915600-149969200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:149915800-149934800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr6:149915800-149969200	Weak transcription	Gastric	stomach
11	chr6:149916000-149935000	Weak transcription	Spleen	Spleen
12	chr6:149916000-149943000	Weak transcription	Colonic Mucosa	Colon
13	chr6:149916400-149934600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr6:149916400-149950200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr6:149917600-149934800	Weak transcription	Psoas Muscle	Psoas
16	chr6:149918400-149935400	Weak transcription	HMEC	breast
17	chr6:149918400-149950200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr6:149918800-149934800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr6:149918800-149934800	Weak transcription	Brain Substantia Nigra	brain
20	chr6:149918800-149967600	Weak transcription	HUVEC	blood vessel
21	chr6:149918800-149967600	Weak transcription	NHLF	lung
22	chr6:149919000-149943000	Weak transcription	NHDF-Ad	bronchial
23	chr6:149919200-149935000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:149919400-149934000	Weak transcription	Primary hematopoietic stem cells	blood
25	chr6:149919400-149934800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr6:149919400-149940600	Weak transcription	Brain Cingulate Gyrus	brain
27	chr6:149919400-149949000	Weak transcription	Osteobl	bone
28	chr6:149919600-149935000	Weak transcription	Lung	lung
29	chr6:149919800-149934400	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr6:149919800-149934800	Weak transcription	Ovary	ovary
31	chr6:149919800-149935000	Weak transcription	Aorta	Aorta
32	chr6:149920200-149931800	Weak transcription	Right Ventricle	heart
33	chr6:149920400-149940200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr6:149920600-149934400	Weak transcription	K562	blood
35	chr6:149920800-149935000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr6:149920800-149935000	Weak transcription	Left Ventricle	heart
37	chr6:149921000-149944000	Weak transcription	HSMMtube	muscle
38	chr6:149921400-149934600	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr6:149922000-149934800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr6:149922800-149934400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr6:149923000-149934400	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr6:149923000-149935000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr6:149923000-149941000	Weak transcription	HSMM	muscle
44	chr6:149923000-149943000	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr6:149923000-149952200	Weak transcription	NH-A	brain
46	chr6:149923200-149942800	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr6:149923400-149935000	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr6:149923400-149947600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr6:149923800-149934600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr6:149924200-149931800	Weak transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links