Variant report

Variant	rs236361
Chromosome Location	chr6:36798150-36798151
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs236360	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs236363	0.94[YRI][hapmap]
rs236364	0.94[YRI][hapmap]
rs9380605	0.89[CEU][hapmap];0.88[GIH][hapmap];0.83[MEX][hapmap];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023171	chr6:36686935-36880899	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv538202	chr6:36686935-36880899	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1033261	chr6:36687424-36837315	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv5261	chr6:36754545-36798824	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Active TSS	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs236361	MTCH1	cis	parietal	SCAN
rs236361	C6orf89	cis	cerebellum	SCAN

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36788400-36802400	Weak transcription	Fetal Kidney	kidney
2	chr6:36789800-36802200	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr6:36790600-36799400	Enhancers	Fetal Muscle Leg	muscle
4	chr6:36791200-36805800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:36795200-36798600	Enhancers	HUVEC	blood vessel
6	chr6:36795200-36802600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:36795400-36798800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:36795800-36801800	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr6:36795800-36802200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:36796400-36802200	Weak transcription	Placenta	Placenta
11	chr6:36797000-36800000	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr6:36797200-36798600	Enhancers	Fetal Intestine Small	intestine
13	chr6:36797400-36798600	Enhancers	Fetal Brain Male	brain
14	chr6:36797600-36798400	Flanking Active TSS	Duodenum Mucosa	Duodenum
15	chr6:36797600-36798600	Enhancers	Liver	Liver
16	chr6:36797600-36798600	Enhancers	Duodenum Smooth Muscle	Duodenum
17	chr6:36797600-36798600	Enhancers	Fetal Intestine Large	intestine
18	chr6:36797600-36798600	Enhancers	Fetal Lung	lung
19	chr6:36797600-36798600	Enhancers	Stomach Mucosa	stomach
20	chr6:36797600-36798800	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr6:36797600-36798800	Enhancers	Brain Hippocampus Middle	brain
22	chr6:36797600-36798800	Enhancers	Fetal Brain Female	brain
23	chr6:36797600-36798800	Enhancers	Fetal Stomach	stomach
24	chr6:36797600-36798800	Enhancers	Right Atrium	heart
25	chr6:36797600-36798800	Flanking Active TSS	HepG2	liver
26	chr6:36797800-36798200	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr6:36797800-36798200	Enhancers	Brain Substantia Nigra	brain
28	chr6:36797800-36798200	Flanking Active TSS	Fetal Heart	heart
29	chr6:36797800-36798200	Flanking Active TSS	Fetal Muscle Trunk	muscle
30	chr6:36797800-36798200	Enhancers	Fetal Thymus	thymus
31	chr6:36797800-36798200	Enhancers	Spleen	Spleen
32	chr6:36797800-36798400	Enhancers	HUES64 Cell Line	embryonic stem cell
33	chr6:36797800-36798400	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:36797800-36798400	Enhancers	Muscle Satellite Cultured Cells	--
35	chr6:36797800-36798400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
36	chr6:36797800-36798400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
37	chr6:36797800-36798400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
38	chr6:36797800-36798400	Flanking Active TSS	Stomach Smooth Muscle	stomach
39	chr6:36797800-36798400	Enhancers	HMEC	breast
40	chr6:36797800-36798400	Enhancers	NHEK	skin
41	chr6:36797800-36798600	Bivalent Enhancer	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr6:36797800-36798600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:36797800-36798600	Enhancers	Aorta	Aorta
44	chr6:36797800-36798600	Flanking Active TSS	Brain Germinal Matrix	brain
45	chr6:36797800-36798600	Enhancers	Brain Inferior Temporal Lobe	brain
46	chr6:36797800-36798600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
47	chr6:36797800-36798600	Enhancers	Colonic Mucosa	Colon
48	chr6:36797800-36798600	Enhancers	Esophagus	oesophagus
49	chr6:36797800-36798600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
50	chr6:36797800-36798600	Enhancers	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links