Variant report

Variant	rs9921652
Chromosome Location	chr16:69668552-69668553
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:69412158..69414395-chr16:69667200..69670184,2	K562	blood:
2	chr16:69665807..69668565-chr16:69668796..69671600,3	K562	blood:
3	chr16:69665807..69668565-chr16:69668907..69671600,2	K562	blood:

Extended variants
information (count: 45 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10517	0.90[CHB][hapmap];0.90[CHD][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs10852459	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs12921017	0.82[ASN][1000 genomes]
rs13329844	0.90[CHB][hapmap];0.90[CHD][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs13331071	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13331216	0.80[ASN][1000 genomes]
rs13335664	0.81[ASN][1000 genomes]
rs13336317	1.00[MEX][hapmap]
rs16958965	0.80[ASN][1000 genomes]
rs16958997	0.95[CHB][hapmap];0.92[CHD][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs16959059	0.90[CHB][hapmap];0.93[CHD][hapmap];0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs2304526	0.90[CHB][hapmap];0.93[CHD][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs28392989	0.81[ASN][1000 genomes]
rs2917667	0.86[CHB][hapmap];0.93[CHD][hapmap]
rs2917669	0.86[CHB][hapmap];0.93[CHD][hapmap];0.82[ASN][1000 genomes]
rs2917673	0.83[ASN][1000 genomes]
rs2917674	0.83[ASN][1000 genomes]
rs2917676	0.83[ASN][1000 genomes]
rs2917682	0.86[CHB][hapmap];0.93[CHD][hapmap]
rs2917683	0.81[CHB][hapmap]
rs2937125	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2965752	0.82[ASN][1000 genomes]
rs2965753	0.86[CHB][hapmap];0.95[CHD][hapmap]
rs2965757	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3785075	0.82[CHB][hapmap];0.81[ASN][1000 genomes]
rs3826153	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.82[TSI][hapmap]
rs3826154	0.90[CHB][hapmap];0.93[CHD][hapmap];0.84[ASN][1000 genomes]
rs4985547	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs61628167	0.80[ASN][1000 genomes]
rs689452	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs689456	0.82[ASN][1000 genomes]
rs7200420	0.88[ASN][1000 genomes]
rs7359387	0.90[CHB][hapmap];0.92[CHD][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs9888993	0.82[CHB][hapmap];0.88[CHD][hapmap]
rs9889219	0.88[CHD][hapmap]
rs9924264	0.80[ASN][1000 genomes]
rs9924271	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9924953	0.82[CHB][hapmap];0.88[CHD][hapmap];0.82[ASN][1000 genomes]
rs9925037	0.90[CHB][hapmap];0.93[CHD][hapmap];0.83[JPT][hapmap]
rs9927809	0.87[ASN][1000 genomes]
rs9934321	0.87[ASN][1000 genomes]
rs9934681	0.82[CHB][hapmap];0.88[CHD][hapmap];0.80[ASN][1000 genomes]
rs9936464	0.90[CHB][hapmap];0.93[CHD][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs9937018	0.90[CHB][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs9938717	0.85[CHB][hapmap];0.85[CHD][hapmap]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs9921652	HYDIN	cis	parietal	SCAN
rs9921652	C16orf86	cis	parietal	SCAN
rs9921652	CDH16	cis	cerebellum	SCAN
rs9921652	NOL3	cis	cerebellum	SCAN
rs9921652	AP1G1	cis	parietal	SCAN
rs9921652	ATP6V0D1	cis	cerebellum	SCAN

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:69624200-69669600	Weak transcription	Ovary	ovary
2	chr16:69645000-69669600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr16:69645400-69669800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr16:69645800-69669600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr16:69645800-69681000	Weak transcription	Fetal Brain Female	brain
6	chr16:69647200-69669000	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr16:69647600-69670200	Weak transcription	Fetal Kidney	kidney
8	chr16:69647600-69705000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr16:69647800-69669200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr16:69647800-69669200	Weak transcription	Adipose Nuclei	Adipose
11	chr16:69648000-69669200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr16:69648000-69669600	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr16:69650200-69670000	Weak transcription	Pancreas	Pancrea
14	chr16:69650200-69670200	Weak transcription	Gastric	stomach
15	chr16:69650200-69670200	Weak transcription	Spleen	Spleen
16	chr16:69650400-69669200	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr16:69650600-69670000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr16:69653000-69668800	Weak transcription	Duodenum Mucosa	Duodenum
19	chr16:69653600-69669400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr16:69653600-69669800	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr16:69653600-69670000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr16:69653600-69680800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr16:69653600-69689600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr16:69653800-69669200	Weak transcription	Fetal Muscle Leg	muscle
25	chr16:69653800-69670000	Weak transcription	Right Ventricle	heart
26	chr16:69653800-69670000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr16:69653800-69670000	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr16:69653800-69670200	Weak transcription	Brain Germinal Matrix	brain
29	chr16:69654200-69669800	Weak transcription	Brain Anterior Caudate	brain
30	chr16:69654200-69670000	Weak transcription	Brain Hippocampus Middle	brain
31	chr16:69654200-69670200	Weak transcription	Brain Cingulate Gyrus	brain
32	chr16:69654200-69703600	Weak transcription	Brain Angular Gyrus	brain
33	chr16:69654200-69705600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr16:69654600-69705000	Weak transcription	Psoas Muscle	Psoas
35	chr16:69656000-69670600	Weak transcription	Small Intestine	intestine
36	chr16:69658800-69669000	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr16:69659200-69670000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr16:69659800-69669400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr16:69660000-69669000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr16:69660200-69670200	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr16:69660200-69670400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr16:69660200-69671800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr16:69660400-69670200	Weak transcription	NHLF	lung
44	chr16:69660400-69709600	Weak transcription	Fetal Brain Male	brain
45	chr16:69660600-69669200	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr16:69660600-69670000	Weak transcription	Fetal Thymus	thymus
47	chr16:69660600-69670200	Strong transcription	HepG2	liver
48	chr16:69660600-69672200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr16:69660800-69669400	Weak transcription	HUES48 Cell Line	embryonic stem cell
50	chr16:69660800-69669600	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links