Variant report

Variant	rs9461034
Chromosome Location	chr6:24518493-24518494
allele	A/G
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	RELA	chr6:24517739-24518525	GM10847	blood:	n/a	n/a
2	POLR2A	chr6:24517663-24518782	GM12878	blood:	n/a	n/a
3	WRNIP1	chr6:24518434-24518633	GM12878	blood:	n/a	n/a
4	RELA	chr6:24517798-24518634	GM15510	blood:	n/a	n/a
5	POLR2A	chr6:24517748-24518651	GM19193	blood:	n/a	n/a
6	USF2	chr6:24517797-24518647	GM12878	blood:	n/a	n/a
7	POLR2A	chr6:24517786-24518756	GM12892	blood:	n/a	n/a
8	RELA	chr6:24517726-24518536	GM18505	blood:	n/a	n/a
9	PML	chr6:24517548-24518517	GM12878	blood:	n/a	n/a
10	RELA	chr6:24517824-24518653	GM19099	blood:	n/a	n/a
11	POLR2A	chr6:24517711-24518710	GM12891	blood:	n/a	n/a
12	POLR2A	chr6:24517745-24518790	GM18505	blood:	n/a	n/a
13	RELA	chr6:24517722-24518749	GM18951	blood:	n/a	n/a
14	EBF1	chr6:24517881-24518692	GM12878	blood:	n/a	chr6:24518512-24518523
15	ZNF143	chr6:24517867-24518681	GM12878	blood:	n/a	n/a
16	NFIC	chr6:24517975-24518540	GM12878	blood:	n/a	n/a
17	POLR2A	chr6:24517647-24518754	GM12892	blood:	n/a	n/a
18	RELA	chr6:24517763-24518745	GM12891	blood:	n/a	n/a
19	RELA	chr6:24517775-24518651	GM19193	blood:	n/a	n/a
20	POLR2A	chr6:24517737-24518740	GM19099	blood:	n/a	n/a
21	MTA3	chr6:24517682-24518603	GM12878	blood:	n/a	n/a
22	CTCF	chr6:24518400-24518550	GM12871	blood:	n/a	n/a
23	RUNX3	chr6:24517859-24518514	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:24516709..24519045-chr6:24521088..24523904,2	K562	blood:
2	chr6:24517545..24519308-chr6:24521024..24523904,2	K562	blood:

Variant related genes	Relation type
ALDH5A1	TF binding region
ENSG00000112294	Chromatin interaction

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

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

rs_ID	r²[population]
rs3886624	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6910514	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7760139	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7760171	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9461035	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

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	esv2763542	chr6:24445131-24520637	Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv519552	chr6:24451256-24524704	Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases
3	esv34020	chr6:24481299-24606036	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24496000-24534200	Weak transcription	Gastric	stomach
2	chr6:24496000-24538000	Weak transcription	Esophagus	oesophagus
3	chr6:24496200-24526400	Weak transcription	Right Atrium	heart
4	chr6:24496200-24527800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr6:24496200-24534200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:24496200-24535000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr6:24496200-24536200	Weak transcription	Psoas Muscle	Psoas
8	chr6:24496200-24583000	Weak transcription	Hela-S3	cervix
9	chr6:24496400-24532200	Weak transcription	Brain Germinal Matrix	brain
10	chr6:24496800-24522800	Weak transcription	Lung	lung
11	chr6:24496800-24532400	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr6:24497000-24528200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr6:24497400-24522400	Weak transcription	K562	blood
14	chr6:24504200-24522600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:24504400-24534200	Weak transcription	Pancreas	Pancrea
16	chr6:24505400-24534000	Weak transcription	Brain Cingulate Gyrus	brain
17	chr6:24505800-24527800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr6:24505800-24530800	Weak transcription	Right Ventricle	heart
19	chr6:24505800-24534000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr6:24505800-24534000	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr6:24506400-24530000	Weak transcription	Placenta	Placenta
22	chr6:24507400-24531400	Weak transcription	Fetal Lung	lung
23	chr6:24507600-24522800	Weak transcription	Fetal Kidney	kidney
24	chr6:24507600-24532400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr6:24507600-24532400	Weak transcription	Fetal Brain Female	brain
26	chr6:24507800-24532400	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr6:24507800-24536800	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr6:24507800-24539200	Weak transcription	Brain Hippocampus Middle	brain
29	chr6:24508000-24521000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr6:24509400-24545800	Weak transcription	Small Intestine	intestine
31	chr6:24511600-24518800	Strong transcription	HepG2	liver
32	chr6:24512200-24521000	Strong transcription	Liver	Liver
33	chr6:24512200-24521400	Strong transcription	Dnd41	blood
34	chr6:24512200-24525000	Strong transcription	Fetal Intestine Small	intestine
35	chr6:24512400-24519200	Strong transcription	Stomach Smooth Muscle	stomach
36	chr6:24512400-24519600	Strong transcription	Primary T cells from cord blood	blood
37	chr6:24512400-24520000	Strong transcription	Fetal Stomach	stomach
38	chr6:24512400-24533000	Weak transcription	Brain Substantia Nigra	brain
39	chr6:24513000-24518600	Strong transcription	Fetal Muscle Trunk	muscle
40	chr6:24513800-24519600	Strong transcription	Fetal Intestine Large	intestine
41	chr6:24514600-24520600	Strong transcription	Thymus	Thymus
42	chr6:24515000-24532200	Weak transcription	Primary hematopoietic stem cells	blood
43	chr6:24516000-24522400	Weak transcription	Aorta	Aorta
44	chr6:24516000-24523600	Weak transcription	Duodenum Mucosa	Duodenum
45	chr6:24516000-24530800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr6:24516000-24531000	Weak transcription	Brain Anterior Caudate	brain
47	chr6:24516000-24534200	Weak transcription	Brain Angular Gyrus	brain
48	chr6:24516200-24518800	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr6:24516200-24527800	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr6:24516200-24532400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links