Variant report

Variant	rs57941088
Chromosome Location	chr6:150941738-150941739
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA2	chr6:150941476-150941782	HepG2	liver:	n/a	n/a
2	FOXA1	chr6:150941396-150941811	HepG2	liver:	n/a	n/a
3	FOXA2	chr6:150941494-150941758	A549	lung:	n/a	n/a
4	FOXA1	chr6:150941463-150941856	HepG2	liver:	n/a	n/a
5	FOXA1	chr6:150941400-150941837	HepG2	liver:	n/a	n/a
6	FOXA1	chr6:150941350-150941888	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000224029	TF binding region

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs4133114	1.00[EUR][1000 genomes]
rs56115385	1.00[EUR][1000 genomes]
rs56240015	1.00[EUR][1000 genomes]
rs57832891	1.00[EUR][1000 genomes]
rs58095059	1.00[EUR][1000 genomes]
rs58578147	1.00[EUR][1000 genomes]
rs59258256	1.00[EUR][1000 genomes]
rs59672491	1.00[EUR][1000 genomes]
rs60016940	1.00[EUR][1000 genomes]
rs73605181	1.00[EUR][1000 genomes]
rs73606254	1.00[EUR][1000 genomes]
rs73606255	1.00[EUR][1000 genomes]
rs73607031	1.00[EUR][1000 genomes]
rs73607056	1.00[EUR][1000 genomes]
rs73607069	1.00[EUR][1000 genomes]
rs73607070	1.00[EUR][1000 genomes]
rs73780022	1.00[EUR][1000 genomes]
rs73780023	1.00[EUR][1000 genomes]
rs73780024	1.00[EUR][1000 genomes]
rs73780025	1.00[EUR][1000 genomes]
rs73780026	1.00[EUR][1000 genomes]
rs73780027	1.00[EUR][1000 genomes]
rs73782675	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv886774	chr6:150931131-150983318	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:50 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150928200-150944800	Weak transcription	Stomach Smooth Muscle	stomach
2	chr6:150928400-150952800	Weak transcription	Right Ventricle	heart
3	chr6:150928600-150948800	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:150931000-150947400	Weak transcription	Placenta	Placenta
5	chr6:150935000-150943800	Weak transcription	Liver	Liver
6	chr6:150936600-150944600	Enhancers	Primary B cells from peripheral blood	blood
7	chr6:150938600-150941800	Enhancers	Brain Inferior Temporal Lobe	brain
8	chr6:150938600-150942000	Enhancers	Brain Cingulate Gyrus	brain
9	chr6:150938600-150942400	Enhancers	Brain Substantia Nigra	brain
10	chr6:150938600-150943800	Enhancers	Sigmoid Colon	Sigmoid Colon
11	chr6:150938800-150942000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
12	chr6:150939000-150944600	Weak transcription	Fetal Muscle Leg	muscle
13	chr6:150939000-150945200	Enhancers	Adipose Nuclei	Adipose
14	chr6:150939000-150949600	Weak transcription	Pancreas	Pancrea
15	chr6:150939000-150954200	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr6:150939200-150942400	Enhancers	HUVEC	blood vessel
17	chr6:150939200-150944600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:150939600-150941800	Enhancers	Brain Angular Gyrus	brain
19	chr6:150939800-150948600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:150940200-150942000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr6:150940200-150942000	Enhancers	Fetal Lung	lung
22	chr6:150940200-150942000	Enhancers	Right Atrium	heart
23	chr6:150940200-150942400	Enhancers	Spleen	Spleen
24	chr6:150940200-150944600	Enhancers	Duodenum Mucosa	Duodenum
25	chr6:150940400-150941800	Enhancers	Brain Anterior Caudate	brain
26	chr6:150940400-150941800	Enhancers	Brain Hippocampus Middle	brain
27	chr6:150940400-150942000	Enhancers	Duodenum Smooth Muscle	Duodenum
28	chr6:150940400-150943400	Genic enhancers	Fetal Thymus	thymus
29	chr6:150940800-150942400	Enhancers	Small Intestine	intestine
30	chr6:150940800-150947400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:150940800-150948600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr6:150941000-150944200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr6:150941200-150941800	Enhancers	Skeletal Muscle Male	skeletal muscle
34	chr6:150941200-150942000	Enhancers	Left Ventricle	heart
35	chr6:150941200-150943800	Weak transcription	Fetal Kidney	kidney
36	chr6:150941200-150953000	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr6:150941400-150942000	Genic enhancers	Primary B cells from cord blood	blood
38	chr6:150941400-150942000	Enhancers	Colonic Mucosa	Colon
39	chr6:150941400-150942000	Enhancers	Fetal Stomach	stomach
40	chr6:150941400-150942000	Enhancers	Gastric	stomach
41	chr6:150941400-150942000	Genic enhancers	Thymus	Thymus
42	chr6:150941400-150942000	Bivalent Enhancer	HepG2	liver
43	chr6:150941400-150942200	Enhancers	Stomach Mucosa	stomach
44	chr6:150941400-150942400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
45	chr6:150941400-150942600	Enhancers	Fetal Intestine Large	intestine
46	chr6:150941400-150942600	Enhancers	Fetal Intestine Small	intestine
47	chr6:150941600-150941800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr6:150941600-150941800	Enhancers	Lung	lung
49	chr6:150941600-150942200	Active TSS	Rectal Mucosa Donor 29	rectum
50	chr6:150941600-150943400	Weak transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links