Variant report

Variant	rs6936524
Chromosome Location	chr6:107020616-107020617
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	NR3C1	chr6:107020303-107020687	A549	lung:	n/a	n/a
2	NR3C1	chr6:107020284-107020709	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:106966221..106967730-chr6:107020396..107023333,2	K562	blood:
2	chr6:107015186..107019072-chr6:107020325..107023506,3	K562	blood:
3	chr22:45106965..45107475-chr6:107020384..107020886,2	MCF-7	breast:

Variant related genes	Relation type
RTN4IP1	TF binding region

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1676011	0.82[MEX][hapmap]
rs1676017	0.82[MEX][hapmap]
rs1770727	0.82[MEX][hapmap]
rs4946767	1.00[MEX][hapmap]
rs7759505	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106964800-107029800	Weak transcription	Small Intestine	intestine
2	chr6:106970600-107022400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:106996200-107022400	Weak transcription	Ovary	ovary
4	chr6:106996200-107023000	Weak transcription	Stomach Mucosa	stomach
5	chr6:106996400-107027000	Strong transcription	Primary B cells from peripheral blood	blood
6	chr6:106996400-107030800	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:106996400-107074000	Weak transcription	Fetal Kidney	kidney
8	chr6:106996600-107022400	Weak transcription	HUVEC	blood vessel
9	chr6:106999000-107022400	Weak transcription	Right Ventricle	heart
10	chr6:106999200-107022400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:106999800-107030600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr6:107000800-107021200	Strong transcription	Primary B cells from cord blood	blood
13	chr6:107002400-107023000	Weak transcription	Gastric	stomach
14	chr6:107005000-107021400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr6:107005000-107021800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr6:107008400-107027600	Strong transcription	Primary T cells from cord blood	blood
17	chr6:107010200-107064600	Weak transcription	A549	lung
18	chr6:107010600-107022400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr6:107011800-107030000	Weak transcription	Fetal Muscle Trunk	muscle
20	chr6:107012600-107022400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr6:107012800-107030600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr6:107014200-107022400	Weak transcription	Hela-S3	cervix
23	chr6:107014400-107038800	Weak transcription	Fetal Brain Female	brain
24	chr6:107014600-107021800	Weak transcription	Psoas Muscle	Psoas
25	chr6:107014800-107022400	Weak transcription	Brain Angular Gyrus	brain
26	chr6:107016000-107022200	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr6:107016200-107022400	Weak transcription	Brain Substantia Nigra	brain
28	chr6:107016200-107039400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr6:107016400-107022600	Weak transcription	Brain Anterior Caudate	brain
30	chr6:107016800-107020800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr6:107017000-107032800	Weak transcription	K562	blood
32	chr6:107017400-107021200	Strong transcription	Left Ventricle	heart
33	chr6:107017800-107020800	Strong transcription	Esophagus	oesophagus
34	chr6:107017800-107022200	Weak transcription	NHLF	lung
35	chr6:107017800-107022200	Weak transcription	Osteobl	bone
36	chr6:107017800-107022600	Weak transcription	Lung	lung
37	chr6:107017800-107041000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr6:107018000-107021800	Weak transcription	HSMM	muscle
39	chr6:107018000-107022400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr6:107018000-107022400	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr6:107018000-107022400	Weak transcription	HepG2	liver
42	chr6:107018000-107030800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr6:107018000-107052600	Weak transcription	Colonic Mucosa	Colon
44	chr6:107018200-107022400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr6:107018400-107022400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr6:107018400-107066400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr6:107018400-107076400	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr6:107018600-107022400	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr6:107018600-107022400	Weak transcription	Brain Hippocampus Middle	brain
50	chr6:107018600-107025600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links