Variant report

Variant	rs9369979
Chromosome Location	chr6:13302285-13302286
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:13282855..13286239-chr6:13300914..13304700,4	K562	blood:
2	chr6:13271006..13273760-chr6:13301939..13304225,2	K562	blood:
3	chr6:13299774..13302593-chr6:13305903..13308627,2	K562	blood:
4	chr6:13298717..13301545-chr6:13301638..13304448,3	K562	blood:

Variant related genes	Relation type
ENSG00000215022	Chromatin interaction
ENSG00000112137	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11759028	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12697949	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1550526	0.84[ASN][1000 genomes]
rs2002961	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs202042	0.85[ASN][1000 genomes]
rs202044	0.86[ASN][1000 genomes]
rs202045	0.85[ASN][1000 genomes]
rs202046	0.85[ASN][1000 genomes]
rs35952102	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs375661	0.83[ASN][1000 genomes]
rs3800481	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3800482	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3800483	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3800484	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3800485	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3800486	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3823442	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3823443	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3857594	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs405078	0.83[ASN][1000 genomes]
rs445714	0.83[ASN][1000 genomes]
rs454563	0.84[ASN][1000 genomes]
rs4602719	0.84[ASN][1000 genomes]
rs475165	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs495895	0.83[ASN][1000 genomes]
rs6909879	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6914796	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6922200	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923757	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6924855	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7742398	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7755309	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs878700	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs909508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296641	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296642	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9369976	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9369978	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9473908	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9473909	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9473929	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9473930	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][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	nsv532021	chr6:13232627-13805381	Active TSS Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv1028533	chr6:13239059-13484814	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv538136	chr6:13239059-13484814	Strong transcription Weak transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1034016	chr6:13248122-13418225	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13285400-13302400	Weak transcription	HUVEC	blood vessel
2	chr6:13287000-13303600	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:13288400-13302600	Weak transcription	Hela-S3	cervix
4	chr6:13288400-13302800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr6:13288600-13302400	Strong transcription	Fetal Brain Female	brain
6	chr6:13288600-13302600	Strong transcription	Fetal Muscle Leg	muscle
7	chr6:13288600-13321000	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr6:13288600-13326400	Strong transcription	Primary T cells from cord blood	blood
9	chr6:13289800-13327000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:13290200-13302800	Weak transcription	NHEK	skin
11	chr6:13290400-13310400	Strong transcription	Dnd41	blood
12	chr6:13290600-13302800	Weak transcription	Stomach Mucosa	stomach
13	chr6:13291000-13302800	Strong transcription	Fetal Stomach	stomach
14	chr6:13291200-13303000	Strong transcription	Fetal Intestine Small	intestine
15	chr6:13291200-13310400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr6:13291400-13303600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr6:13291600-13302400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:13291600-13302400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr6:13291600-13302600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:13291600-13302600	Strong transcription	Duodenum Mucosa	Duodenum
21	chr6:13291600-13305800	Strong transcription	Thymus	Thymus
22	chr6:13291800-13320400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr6:13292000-13302600	Strong transcription	Fetal Intestine Large	intestine
24	chr6:13292000-13326000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr6:13292400-13302600	Strong transcription	Primary T cells fromperipheralblood	blood
26	chr6:13292600-13326600	Strong transcription	HUES64 Cell Line	embryonic stem cell
27	chr6:13293000-13302800	Strong transcription	Fetal Lung	lung
28	chr6:13293200-13305400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr6:13294200-13302600	Genic enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr6:13295000-13304800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr6:13295200-13305200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr6:13295400-13302600	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr6:13295600-13302600	Weak transcription	Esophagus	oesophagus
34	chr6:13295600-13302800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr6:13295800-13302400	Weak transcription	A549	lung
36	chr6:13295800-13302600	Weak transcription	Rectal Smooth Muscle	rectum
37	chr6:13295800-13302600	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr6:13295800-13302800	Weak transcription	HMEC	breast
39	chr6:13295800-13303000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr6:13296200-13302600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr6:13296200-13302600	Weak transcription	Colonic Mucosa	Colon
42	chr6:13296600-13302600	Weak transcription	Pancreas	Pancrea
43	chr6:13297000-13302600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr6:13297200-13302400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr6:13297400-13302600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr6:13297400-13302600	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr6:13297600-13302400	Strong transcription	Duodenum Smooth Muscle	Duodenum
48	chr6:13297600-13303200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr6:13297800-13302600	Strong transcription	Fetal Thymus	thymus
50	chr6:13298000-13309600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links