Variant report

Variant	rs7198317
Chromosome Location	chr16:70610223-70610224
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:101)
CpG islands
(count:0)
Chromatin interactive
region (count:0)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:101 , 50 per page) page: 1 2 3

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NFIC	chr16:70610141-70610801	GM12878	blood:	n/a	n/a
2	BCL3	chr16:70610085-70611757	A549	lung:	n/a	n/a
3	POLR2A	chr16:70609386-70611569	GM12878	blood:	n/a	n/a
4	POLR2A	chr16:70609314-70611763	U87	brain:	n/a	n/a
5	POLR2A	chr16:70609327-70611564	GM12878	blood:	n/a	n/a
6	POLR2A	chr16:70609234-70611733	PANC-1	pancreas:	n/a	n/a
7	POLR2A	chr16:70610186-70611565	Hela-S3	cervix:	n/a	n/a
8	MTA3	chr16:70609736-70611571	GM12878	blood:	n/a	n/a
9	CEBPB	chr16:70610090-70610816	GM12878	blood:	n/a	n/a
10	POLR2A	chr16:70609201-70611753	PFSK-1	brain:	n/a	n/a
11	POLR2A	chr16:70609298-70611270	HepG2	liver:	n/a	n/a
12	ATF2	chr16:70610164-70610745	GM12878	blood:	n/a	n/a
13	POLR2A	chr16:70610181-70611462	GM12892	blood:	n/a	n/a
14	POLR2A	chr16:70605504-70611628	K562	blood:	n/a	n/a
15	BATF	chr16:70610198-70610585	GM12878	blood:	n/a	n/a
16	POLR2A	chr16:70609387-70611494	K562	blood:	n/a	n/a
17	BHLHE40	chr16:70610203-70610745	GM12878	blood:	n/a	n/a
18	BCL3	chr16:70610185-70610818	GM12878	blood:	n/a	n/a
19	JUND	chr16:70610199-70611695	SK-N-SH	brain:	n/a	n/a
20	POLR2A	chr16:70610216-70611590	H1-hESC	embryonic stem cell:	n/a	n/a
21	RUNX3	chr16:70610123-70610775	GM12878	blood:	n/a	n/a
22	POLR2A	chr16:70609260-70610791	K562	blood:	n/a	n/a
23	POLR2A	chr16:70609324-70611432	PFSK-1	brain:	n/a	n/a
24	POLR2A	chr16:70610217-70611709	U87	brain:	n/a	n/a
25	POLR2A	chr16:70605539-70612779	K562	blood:	n/a	n/a
26	POLR2A	chr16:70609370-70614299	A549	lung:	n/a	n/a
27	POLR2A	chr16:70609152-70611557	GM12892	blood:	n/a	n/a
28	FOSL2	chr16:70609219-70611487	HepG2	liver:	n/a	n/a
29	POLR2A	chr16:70609264-70611690	H1-hESC	embryonic stem cell:	n/a	n/a
30	POLR2A	chr16:70609382-70611390	K562	blood:	n/a	n/a
31	POLR2A	chr16:70609319-70611603	HL-60	blood:	n/a	n/a
32	PML	chr16:70609308-70610931	GM12878	blood:	n/a	n/a
33	POLR2A	chr16:70610158-70610800	HCT-116	colon:	n/a	n/a
34	POLR2A	chr16:70609293-70611676	SK-N-SH	brain:	n/a	n/a
35	MEF2A	chr16:70610114-70610717	GM12878	blood:	n/a	n/a
36	POLR2A	chr16:70610193-70611609	ECC-1	luminal epithelium:	n/a	n/a
37	POLR2A	chr16:70609320-70611757	U87	brain:	n/a	n/a
38	POLR2A	chr16:70610183-70610786	GM12878	blood:	n/a	n/a
39	BCL3	chr16:70610067-70611604	K562	blood:	n/a	n/a
40	NFATC1	chr16:70610056-70611250	GM12878	blood:	n/a	n/a
41	MYBL2	chr16:70610165-70610827	HepG2	liver:	n/a	n/a
42	FOXM1	chr16:70609678-70610811	GM12878	blood:	n/a	n/a
43	POLR2A	chr16:70610112-70611522	GM18505	blood:	n/a	n/a
44	PML	chr16:70610200-70610806	K562	blood:	n/a	n/a
45	BCL11A	chr16:70610213-70610491	GM12878	blood:	n/a	n/a
46	POLR2A	chr16:70610182-70610784	GM12878	blood:	n/a	n/a
47	POLR2A	chr16:70609259-70611620	PANC-1	pancreas:	n/a	n/a
48	POLR2A	chr16:70609310-70611557	HCT-116	colon:	n/a	n/a
49	POLR2A	chr16:70610184-70610756	HepG2	liver:	n/a	n/a
50	PML	chr16:70610215-70610777	K562	blood:	n/a	n/a

No data

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SF3B3-1	chr16:70610204-70610251	ENSG00000260023.1

No data

Variant related genes	Relation type
IL34	TF binding region

Extended variants
information (count: 65 )
Associated
traits (count: 16 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10852465	0.85[EUR][1000 genomes]
rs11075767	0.81[ASW][hapmap];0.96[CEU][hapmap];0.82[GIH][hapmap];0.81[LWK][hapmap];0.89[MKK][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs11075768	0.96[EUR][1000 genomes]
rs11075769	0.89[EUR][1000 genomes]
rs11075770	0.96[CEU][hapmap];0.88[MKK][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs11075772	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11640374	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11641683	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs11643373	0.96[CEU][hapmap];0.84[GIH][hapmap];0.93[TSI][hapmap];0.95[EUR][1000 genomes]
rs11643823	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11645092	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11645214	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11645287	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11645437	0.96[CEU][hapmap];0.96[EUR][1000 genomes]
rs11645585	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs11648402	0.96[CEU][hapmap];0.84[GIH][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs11649624	0.87[EUR][1000 genomes]
rs11866400	0.92[CEU][hapmap];0.94[EUR][1000 genomes]
rs12446395	0.91[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap]
rs12597401	0.81[ASW][hapmap];0.96[CEU][hapmap];0.84[GIH][hapmap];0.82[LWK][hapmap];0.91[MKK][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs12909	0.94[EUR][1000 genomes]
rs12925729	0.81[ASW][hapmap];0.96[CEU][hapmap];0.81[LWK][hapmap];0.90[MKK][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs12931402	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12933634	0.81[EUR][1000 genomes]
rs2168606	0.96[CEU][hapmap];0.84[GIH][hapmap];0.95[TSI][hapmap];0.97[EUR][1000 genomes]
rs2288491	0.81[ASW][hapmap];0.96[CEU][hapmap];0.87[LWK][hapmap];0.89[MKK][hapmap];0.98[TSI][hapmap];0.92[EUR][1000 genomes]
rs2303793	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs33910368	0.95[EUR][1000 genomes]
rs34567847	0.96[EUR][1000 genomes]
rs34890962	0.90[EUR][1000 genomes]
rs3762171	0.96[CEU][hapmap];0.82[GIH][hapmap];0.83[LWK][hapmap];0.84[MKK][hapmap];0.95[TSI][hapmap];0.89[EUR][1000 genomes]
rs4284632	0.96[CEU][hapmap];0.96[EUR][1000 genomes]
rs4324119	0.93[EUR][1000 genomes]
rs4436771	0.80[ASW][hapmap];0.96[CEU][hapmap];0.84[LWK][hapmap];0.89[MKK][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs4513092	0.96[CEU][hapmap];0.96[EUR][1000 genomes]
rs4592653	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs58963621	0.92[EUR][1000 genomes]
rs6499320	0.96[CEU][hapmap];0.95[EUR][1000 genomes]
rs6499321	0.95[EUR][1000 genomes]
rs71401814	0.93[EUR][1000 genomes]
rs7192865	0.84[JPT][hapmap];0.95[LWK][hapmap];0.83[YRI][hapmap]
rs7195030	0.94[EUR][1000 genomes]
rs7197262	0.96[EUR][1000 genomes]
rs7197840	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7199859	0.81[EUR][1000 genomes]
rs7200430	0.96[CEU][hapmap];0.84[GIH][hapmap];0.89[TSI][hapmap];0.80[EUR][1000 genomes]
rs7201750	0.96[CEU][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs7204583	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs722579	0.96[CEU][hapmap];0.84[GIH][hapmap];0.88[MKK][hapmap];0.93[TSI][hapmap];0.84[EUR][1000 genomes]
rs8045651	0.82[EUR][1000 genomes]
rs8046881	0.91[EUR][1000 genomes]
rs8047409	0.82[EUR][1000 genomes]
rs8049277	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs8049641	0.96[CEU][hapmap];0.93[TSI][hapmap];0.90[EUR][1000 genomes]
rs8049786	0.89[EUR][1000 genomes]
rs8051506	0.81[ASW][hapmap];0.96[CEU][hapmap];0.84[LWK][hapmap];0.89[MKK][hapmap];0.98[TSI][hapmap];0.93[EUR][1000 genomes]
rs8052031	0.84[EUR][1000 genomes]
rs8052125	0.96[CEU][hapmap];0.84[GIH][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes]
rs8057610	0.96[CEU][hapmap];0.82[GIH][hapmap];0.93[TSI][hapmap];0.89[EUR][1000 genomes]
rs8062178	0.96[CEU][hapmap];0.95[EUR][1000 genomes]
rs8063990	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs8064013	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs9635522	0.96[EUR][1000 genomes]
rs9929904	0.80[EUR][1000 genomes]
rs9936225	0.96[CEU][hapmap];0.84[GIH][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]

mRNA abundance (count:16)

SNP	Gene	Cis/trans	Tissue	Source
rs7198317	EXOSC6	cis	parietal	SCAN
rs7198317	COG4	cis	Whole Blood	GTEx
rs7198317	PDPR	cis	cerebellum	SCAN
rs7198317	PDPR	cis	parietal	SCAN
rs7198317	EXOSC6	cis	cerebellum	SCAN
rs7198317	EXOSC6	Cis_1M	lymphoblastoid	RTeQTL
rs7198317	SF3B3	cis	cerebellum	SCAN
rs7198317	WWP2	cis	parietal	SCAN
rs7198317	LOC440348	Cis_chr	lymphoblastoid	RTeQTL
rs7198317	TMCO7	cis	parietal	SCAN
rs7198317	LOC283970	cis	multi-tissue	Pritchard
rs7198317	WWP2	cis	cerebellum	SCAN
rs7198317	RP11-296I10.6	cis	Thyroid	GTEx
rs7198317	RP11-296I10.6	cis	Artery Tibial	GTEx
rs7198317	C16orf86	cis	cerebellum	SCAN
rs7198317	SF3B3	cis	parietal	SCAN

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:70581600-70611400	Strong transcription	Brain Germinal Matrix	brain
2	chr16:70603800-70611000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr16:70604400-70611000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr16:70605200-70611400	Genic enhancers	Fetal Muscle Leg	muscle
5	chr16:70606200-70610400	Genic enhancers	Fetal Stomach	stomach
6	chr16:70606600-70610600	Weak transcription	Small Intestine	intestine
7	chr16:70607000-70610400	Weak transcription	Brain Angular Gyrus	brain
8	chr16:70607000-70611400	Weak transcription	Brain Substantia Nigra	brain
9	chr16:70607000-70613200	Weak transcription	Stomach Mucosa	stomach
10	chr16:70607400-70610400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr16:70607400-70610400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr16:70607400-70611000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr16:70607600-70610400	Weak transcription	Fetal Brain Male	brain
14	chr16:70607600-70615400	Weak transcription	Fetal Heart	heart
15	chr16:70607800-70610400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr16:70607800-70612800	Weak transcription	Brain Hippocampus Middle	brain
17	chr16:70608000-70610400	Weak transcription	Aorta	Aorta
18	chr16:70608000-70611200	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr16:70608000-70611200	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr16:70608000-70613400	Weak transcription	Right Ventricle	heart
21	chr16:70608000-70624600	Weak transcription	Pancreas	Pancrea
22	chr16:70608200-70613200	Weak transcription	HepG2	liver
23	chr16:70608400-70610400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr16:70608400-70610800	Weak transcription	Right Atrium	heart
25	chr16:70608400-70612600	Weak transcription	Fetal Brain Female	brain
26	chr16:70608400-70613400	Weak transcription	Rectal Smooth Muscle	rectum
27	chr16:70608400-70613600	Weak transcription	Ovary	ovary
28	chr16:70608600-70610400	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr16:70608600-70613200	Weak transcription	Left Ventricle	heart
30	chr16:70608600-70613400	Weak transcription	Esophagus	oesophagus
31	chr16:70608600-70613800	Weak transcription	Brain Cingulate Gyrus	brain
32	chr16:70608800-70610400	Weak transcription	Colon Smooth Muscle	Colon
33	chr16:70608800-70610400	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr16:70608800-70616000	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr16:70609000-70610400	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr16:70609000-70610400	Weak transcription	Primary B cells from peripheral blood	blood
37	chr16:70609000-70610400	Weak transcription	Fetal Kidney	kidney
38	chr16:70609000-70610800	Weak transcription	Brain Anterior Caudate	brain
39	chr16:70609000-70611200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr16:70609000-70612000	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr16:70609000-70612400	Enhancers	NHDF-Ad	bronchial
42	chr16:70609000-70613200	Weak transcription	K562	blood
43	chr16:70609000-70613600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr16:70609000-70613800	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr16:70609000-70613800	Weak transcription	Gastric	stomach
46	chr16:70609000-70628000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr16:70609600-70610400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr16:70609600-70610400	Weak transcription	Fetal Lung	lung
49	chr16:70609600-70610400	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr16:70609600-70610600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links