Variant report

Variant	rs6736153
Chromosome Location	chr2:73321348-73321349
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA2	chr2:73321095-73321380	HUVEC	blood vessel:	n/a	n/a
2	ZNF384	chr2:73321176-73321372	K562	blood:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:73320586..73325143-chr2:73325606..73330308,7	K562	blood:
2	chr2:73293864..73295731-chr2:73320184..73322140,2	MCF-7	breast:
3	chr2:73313555..73317164-chr2:73319112..73322422,3	K562	blood:
4	chr2:73319149..73321634-chr2:73337430..73340462,3	K562	blood:
5	chr2:73320035..73321634-chr2:73338962..73340570,2	K562	blood:

No data

Variant related genes	Relation type
RAB11FIP5	TF binding region
ENSG00000135631	Chromatin interaction
ENSG00000272702	Chromatin interaction

Extended variants
information (count: 96 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10166220	0.80[CEU][hapmap];0.91[JPT][hapmap]
rs10167566	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10174548	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10176939	0.80[CEU][hapmap];0.86[JPT][hapmap]
rs10177159	0.81[JPT][hapmap]
rs10180720	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.94[ASN][1000 genomes]
rs10180995	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.86[MKK][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10189744	0.80[CEU][hapmap];0.91[JPT][hapmap]
rs10190861	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10192077	0.80[CEU][hapmap];0.83[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.81[MEX][hapmap]
rs10197305	0.85[GIH][hapmap];0.86[JPT][hapmap]
rs10203608	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1046186	0.85[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10865396	0.86[ASN][1000 genomes]
rs11126389	0.86[ASN][1000 genomes]
rs11686557	0.93[ASN][1000 genomes]
rs11885522	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12104691	0.91[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12233055	0.80[CEU][hapmap];0.81[JPT][hapmap];0.80[MEX][hapmap]
rs12614059	0.90[ASN][1000 genomes]
rs13018842	0.86[ASN][1000 genomes]
rs13385994	0.91[ASN][1000 genomes]
rs13388404	0.91[JPT][hapmap]
rs13391532	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs13393567	0.94[ASN][1000 genomes]
rs13400920	0.83[ASW][hapmap];0.82[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13400948	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap];0.96[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13403757	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13403781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13407719	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13416407	0.81[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.99[ASN][1000 genomes]
rs13427947	0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs1370383	0.87[GIH][hapmap];0.81[MEX][hapmap]
rs1430349	0.83[ASW][hapmap];0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.82[MKK][hapmap];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1430350	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1430351	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs17008571	0.86[JPT][hapmap]
rs17008611	0.87[GIH][hapmap];0.81[JPT][hapmap]
rs17008631	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1864488	0.95[CHB][hapmap];0.98[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1992133	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.85[MEX][hapmap];0.96[ASN][1000 genomes]
rs2421098	0.85[CHD][hapmap];0.91[JPT][hapmap]
rs35131031	0.83[ASN][1000 genomes]
rs3813222	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs3813223	0.94[ASN][1000 genomes]
rs3901273	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4144837	0.86[CEU][hapmap];0.91[JPT][hapmap]
rs4514897	0.83[CHD][hapmap];0.91[JPT][hapmap]
rs4591365	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs55894650	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs57536428	0.94[ASN][1000 genomes]
rs57701326	0.88[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs57726945	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs57937746	0.94[ASN][1000 genomes]
rs6546796	0.87[GIH][hapmap];0.81[JPT][hapmap];0.86[MEX][hapmap]
rs6546797	0.87[GIH][hapmap];0.81[JPT][hapmap];0.90[MEX][hapmap]
rs6546800	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6546801	0.94[ASN][1000 genomes]
rs6709938	0.86[JPT][hapmap]
rs6710739	0.86[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap];0.92[ASN][1000 genomes]
rs6710755	0.95[CHB][hapmap];0.98[CHD][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs6711891	0.86[JPT][hapmap];0.90[MEX][hapmap]
rs6712925	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6719333	0.80[CEU][hapmap];0.91[JPT][hapmap]
rs6720817	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6726940	0.81[JPT][hapmap]
rs6727919	0.89[ASW][hapmap];0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.95[MEX][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6729266	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.96[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6732369	0.80[CHD][hapmap];0.87[GIH][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap]
rs6749237	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6750069	0.80[CEU][hapmap];0.86[JPT][hapmap]
rs6757131	0.80[CEU][hapmap];0.86[JPT][hapmap]
rs6759733	0.80[CEU][hapmap];0.81[GIH][hapmap];0.80[JPT][hapmap]
rs727470	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs727471	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs732178	0.80[CEU][hapmap]
rs732179	0.80[CEU][hapmap];0.81[JPT][hapmap]
rs732180	0.80[CEU][hapmap];0.85[GIH][hapmap];0.80[JPT][hapmap];0.90[MEX][hapmap]
rs7557173	0.94[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.96[TSI][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7559074	0.97[ASN][1000 genomes]
rs7559340	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[ASN][1000 genomes]
rs7566904	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.83[YRI][hapmap];0.94[ASN][1000 genomes]
rs7570876	0.91[JPT][hapmap]
rs7579770	0.86[JPT][hapmap]
rs7580216	0.80[CEU][hapmap];0.84[GIH][hapmap];0.81[JPT][hapmap];0.80[MEX][hapmap]
rs7593322	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7597032	0.86[JPT][hapmap]
rs7599657	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7602651	0.83[ASW][hapmap];0.87[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs891432	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs891433	0.94[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs893258	0.86[JPT][hapmap]
rs893259	0.86[JPT][hapmap];0.81[MEX][hapmap]
rs9309471	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002295	chr2:73216155-73350391	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv1006801	chr2:73305056-73431711	Weak transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs6736153	CPVL	trans	brain	seeQTL
rs6736153	MXD1	cis	cerebellum	SCAN
rs6736153	SFXN5	cis	cerebellum	SCAN
rs6736153	RAB11FIP5	cis	multi-tissue	Pritchard
rs6736153	ADD2	cis	parietal	SCAN

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:73303000-73328600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr2:73313200-73327200	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr2:73315600-73330400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr2:73315600-73338000	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr2:73316000-73326600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr2:73316200-73322000	Enhancers	Right Ventricle	heart
7	chr2:73316200-73330400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr2:73316200-73338400	Weak transcription	Brain Germinal Matrix	brain
9	chr2:73316400-73321600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr2:73316400-73329000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr2:73316400-73329200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr2:73316400-73334400	Weak transcription	Fetal Brain Female	brain
13	chr2:73316400-73335000	Weak transcription	Brain Substantia Nigra	brain
14	chr2:73316600-73322600	Enhancers	Placenta	Placenta
15	chr2:73316600-73323800	Weak transcription	Ovary	ovary
16	chr2:73316800-73321600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr2:73316800-73322000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr2:73317600-73323800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr2:73317600-73327000	Weak transcription	Fetal Stomach	stomach
20	chr2:73317600-73328600	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr2:73318200-73321600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr2:73318200-73321800	Enhancers	Left Ventricle	heart
23	chr2:73318400-73321800	Enhancers	Right Atrium	heart
24	chr2:73318400-73328200	Weak transcription	NHLF	lung
25	chr2:73318400-73331800	Weak transcription	Colon Smooth Muscle	Colon
26	chr2:73318600-73334400	Weak transcription	HMEC	breast
27	chr2:73318800-73321600	Weak transcription	Stomach Smooth Muscle	stomach
28	chr2:73318800-73326400	Weak transcription	NHEK	skin
29	chr2:73319000-73321600	Enhancers	Brain Anterior Caudate	brain
30	chr2:73319200-73321600	Enhancers	Fetal Muscle Leg	muscle
31	chr2:73319200-73322200	Enhancers	Fetal Muscle Trunk	muscle
32	chr2:73319200-73322200	Enhancers	HUVEC	blood vessel
33	chr2:73319200-73322600	Enhancers	Skeletal Muscle Female	skeletal muscle
34	chr2:73319200-73322800	Enhancers	Skeletal Muscle Male	skeletal muscle
35	chr2:73319400-73321600	Enhancers	Fetal Heart	heart
36	chr2:73319400-73322000	Enhancers	Adipose Nuclei	Adipose
37	chr2:73319400-73330000	Weak transcription	Brain Cingulate Gyrus	brain
38	chr2:73319600-73322600	Weak transcription	Brain Angular Gyrus	brain
39	chr2:73319800-73324800	Weak transcription	Osteobl	bone
40	chr2:73320200-73321400	Weak transcription	K562	blood
41	chr2:73320200-73321600	Enhancers	HepG2	liver
42	chr2:73320200-73324600	Weak transcription	HSMM	muscle
43	chr2:73320200-73328600	Weak transcription	NH-A	brain
44	chr2:73320200-73328800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr2:73320200-73329000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr2:73320200-73332200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr2:73320600-73321400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr2:73320600-73322400	Enhancers	Psoas Muscle	Psoas
49	chr2:73320600-73323000	Weak transcription	Fetal Intestine Large	intestine
50	chr2:73320600-73328400	Weak transcription	Fetal Intestine Small	intestine

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