Variant report

Variant	rs7505626
Chromosome Location	chr18:12321065-12321066
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:12320304..12322638-chr18:12766672..12769392,2	K562	blood:
2	chr18:12312290..12313035-chr18:12320340..12321330,2	K562	blood:
3	chr18:12320474..12322943-chr18:12328685..12331399,2	K562	blood:

Extended variants
information (count: 81 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10853224	1.00[CEU][hapmap];0.87[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11080567	1.00[CEU][hapmap];0.87[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11267036	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11548177	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11659246	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11660106	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11660222	1.00[CEU][hapmap];0.87[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11663340	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11664255	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11664282	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12455756	0.86[EUR][1000 genomes]
rs12607250	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12607321	1.00[CEU][hapmap];0.87[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12607378	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12954560	0.84[EUR][1000 genomes]
rs12959653	0.83[ASN][1000 genomes]
rs12959674	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12960267	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12960302	1.00[CEU][hapmap];0.87[CHD][hapmap];0.84[GIH][hapmap];0.93[JPT][hapmap];0.86[MEX][hapmap];0.93[TSI][hapmap]
rs12963761	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12965912	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12970667	0.87[CHB][hapmap];0.86[GIH][hapmap];0.93[JPT][hapmap];0.86[TSI][hapmap];0.90[ASN][1000 genomes]
rs28625182	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34685983	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35242253	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3819091	0.85[CHB][hapmap]
rs4796958	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4796959	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4796960	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4796962	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4796963	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4797672	0.82[ASN][1000 genomes]
rs4797673	1.00[CEU][hapmap];0.87[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4797674	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4797675	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58136410	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61604633	0.87[EUR][1000 genomes]
rs62097556	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6505749	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6505751	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7231304	0.93[CEU][hapmap];0.93[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7233290	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7244254	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7244709	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7504558	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7504575	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7504616	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7504908	0.86[LWK][hapmap]
rs7505208	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7505255	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8083882	1.00[CEU][hapmap];0.87[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8087843	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8098040	0.81[CHB][hapmap];0.94[CHD][hapmap];0.93[JPT][hapmap];0.93[MEX][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8098700	0.82[ASN][1000 genomes]
rs8099636	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9303766	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9303767	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9303768	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.86[MEX][hapmap];0.93[TSI][hapmap];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9303769	0.86[LWK][hapmap];0.84[MKK][hapmap]
rs9652931	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9807444	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9945901	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9946172	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9946217	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9946347	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9949054	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9954945	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9958069	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9958525	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9964163	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9966470	0.93[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063125	chr18:12046892-12918251	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	130 gene(s)	inside rSNPs	diseases
2	nsv491873	chr18:12159445-12739784	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
3	nsv909400	chr18:12201374-12585545	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
4	nsv909402	chr18:12211483-12325222	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
5	nsv909403	chr18:12231060-12325222	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
6	nsv1061545	chr18:12235999-12328405	Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
7	esv2758471	chr18:12240681-12499525	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
8	esv2758714	chr18:12240681-12499525	Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Genic enhancers Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
9	nsv576496	chr18:12247872-12490502	Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
10	nsv1060808	chr18:12302792-12514417	Genic enhancers Weak transcription Enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs7505626	TUBB6	Cis_1M	lymphoblastoid	RTeQTL
rs7505626	TUBB6	cis	multi-tissue	Pritchard
rs7505626	TUBB6	cis	lymphoblastoid	seeQTL
rs7505626	TUBB6	cis	Whole Blood	GTEx
rs7505626	MC1R///TUBB3	trans	lymphoblastoid	RTeQTL
rs7505626	TUBB6	cis	lymphoblastoid	GTEx

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:12310000-12324800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr18:12310000-12325800	Weak transcription	Fetal Kidney	kidney
3	chr18:12310200-12324800	Weak transcription	HepG2	liver
4	chr18:12310600-12322800	Strong transcription	Placenta Amnion	Placenta Amnion
5	chr18:12311000-12323200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr18:12311000-12324800	Weak transcription	Spleen	Spleen
7	chr18:12312600-12325000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr18:12312600-12332600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr18:12312800-12324800	Weak transcription	Colonic Mucosa	Colon
10	chr18:12312800-12324800	Weak transcription	Fetal Brain Female	brain
11	chr18:12314000-12333600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr18:12314200-12323000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr18:12314200-12327800	Strong transcription	HUES6 Cell Line	embryonic stem cell
14	chr18:12314400-12342600	Weak transcription	Small Intestine	intestine
15	chr18:12314600-12324400	Weak transcription	Brain Germinal Matrix	brain
16	chr18:12315600-12324800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr18:12316200-12324600	Weak transcription	Gastric	stomach
18	chr18:12316200-12325000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr18:12316400-12323000	Weak transcription	Fetal Lung	lung
20	chr18:12316400-12333600	Weak transcription	Fetal Brain Male	brain
21	chr18:12316600-12324400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr18:12316600-12324800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr18:12316600-12327000	Weak transcription	Stomach Mucosa	stomach
24	chr18:12316800-12321600	Strong transcription	NHEK	skin
25	chr18:12316800-12327600	Strong transcription	HUVEC	blood vessel
26	chr18:12317600-12324800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr18:12317800-12322200	Strong transcription	NH-A	brain
28	chr18:12318000-12321200	Strong transcription	HSMM	muscle
29	chr18:12318000-12325000	Weak transcription	Hela-S3	cervix
30	chr18:12318000-12331200	Strong transcription	HMEC	breast
31	chr18:12318400-12321200	Strong transcription	Muscle Satellite Cultured Cells	--
32	chr18:12318400-12321400	Weak transcription	Pancreas	Pancrea
33	chr18:12318400-12324800	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr18:12318400-12334800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr18:12318600-12321400	Strong transcription	Cortex derived primary cultured neurospheres	brain
36	chr18:12318600-12321400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr18:12318600-12321400	Strong transcription	Esophagus	oesophagus
38	chr18:12318600-12324400	Weak transcription	Thymus	Thymus
39	chr18:12318600-12324800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr18:12318600-12324800	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr18:12318600-12324800	Weak transcription	Aorta	Aorta
42	chr18:12318600-12324800	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr18:12318600-12325200	Weak transcription	Psoas Muscle	Psoas
44	chr18:12318600-12331600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr18:12318800-12321200	Weak transcription	Duodenum Mucosa	Duodenum
46	chr18:12318800-12321200	Weak transcription	Fetal Thymus	thymus
47	chr18:12318800-12321400	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr18:12318800-12323000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
49	chr18:12318800-12324800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr18:12318800-12324800	Weak transcription	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links