Variant report

Variant	rs55965207
Chromosome Location	chr19:37189863-37189864
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1035777	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10402182	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10403456	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10407919	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11084861	0.82[ASN][1000 genomes]
rs11666769	0.85[ASN][1000 genomes]
rs11667894	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11668432	0.88[ASN][1000 genomes]
rs11668689	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11669816	0.83[ASN][1000 genomes]
rs11670914	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11671382	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11672098	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12608459	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12608512	0.81[ASN][1000 genomes]
rs12610555	0.84[ASN][1000 genomes]
rs12610572	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1357879	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1464830	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1464831	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1525133	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1673082	0.84[ASN][1000 genomes]
rs17272386	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1985980	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2052728	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2194976	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2912399	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2912412	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2912444	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2912446	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2967427	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2967437	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2967439	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2967440	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2967442	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2967459	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3096620	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3108593	0.83[EUR][1000 genomes]
rs3108605	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35299345	0.86[ASN][1000 genomes]
rs4806338	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4806339	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4806348	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4806349	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55940011	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60213885	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60297398	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61457535	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61628442	0.85[ASN][1000 genomes]
rs6510551	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs66717711	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs66783290	0.83[ASN][1000 genomes]
rs67258954	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs67995015	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs68012004	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7246216	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7251805	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73609113	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7507224	0.82[ASN][1000 genomes]
rs8100381	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8108985	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs826987	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064851	chr19:36910259-37689721	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv1065698	chr19:36916796-37690124	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv543999	chr19:36916796-37690124	Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv529817	chr19:36930549-37654062	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
5	nsv833817	chr19:36978852-37195695	ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
6	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
7	esv3492171	chr19:37122012-37190210	Weak transcription Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	n/a
8	esv3492172	chr19:37122562-37190060	Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	n/a
9	esv3492173	chr19:37122562-37190060	Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Weak transcription Active TSS Enhancers Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	n/a
10	nsv469794	chr19:37129858-37310257	Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
11	nsv482392	chr19:37129858-37310257	ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
12	esv3420176	chr19:37130161-37207917	ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	n/a
13	esv34384	chr19:37134068-37330613	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
14	nsv817833	chr19:37146694-37357289	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
15	nsv470139	chr19:37171201-37264190	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs55965207	ZNF567	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37179400-37194800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr19:37179400-37199200	Weak transcription	Fetal Heart	heart
3	chr19:37179600-37194400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr19:37183600-37203200	Weak transcription	K562	blood
5	chr19:37184000-37194600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr19:37184400-37194600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr19:37184400-37199000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr19:37186000-37190000	Weak transcription	Hela-S3	cervix
9	chr19:37186000-37194600	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr19:37186400-37194400	Weak transcription	Thymus	Thymus
11	chr19:37186600-37194400	Weak transcription	Fetal Stomach	stomach
12	chr19:37186600-37195400	Weak transcription	Right Ventricle	heart
13	chr19:37187600-37190400	Weak transcription	HSMMtube	muscle
14	chr19:37187600-37194400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr19:37187600-37194400	Weak transcription	Ovary	ovary
16	chr19:37187600-37194600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr19:37187600-37194600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr19:37187600-37194600	Weak transcription	Esophagus	oesophagus
19	chr19:37187600-37194600	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr19:37187600-37194800	Weak transcription	Gastric	stomach
21	chr19:37187600-37196800	Weak transcription	Brain Angular Gyrus	brain
22	chr19:37187600-37198400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr19:37187800-37190000	Weak transcription	Brain Cingulate Gyrus	brain
24	chr19:37187800-37190600	Weak transcription	Brain Substantia Nigra	brain
25	chr19:37187800-37194600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr19:37187800-37194600	Weak transcription	Brain Hippocampus Middle	brain
27	chr19:37188000-37195800	Weak transcription	Stomach Smooth Muscle	stomach
28	chr19:37188000-37196400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr19:37188200-37190000	Weak transcription	HSMM	muscle
30	chr19:37188400-37190200	Weak transcription	Osteobl	bone
31	chr19:37188400-37194600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr19:37188400-37197000	Weak transcription	Fetal Kidney	kidney
33	chr19:37188600-37190800	Weak transcription	Primary B cells from peripheral blood	blood
34	chr19:37188600-37194400	Weak transcription	Primary T helper cells fromperipheralblood	blood
35	chr19:37188600-37194600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr19:37188800-37191600	Weak transcription	Liver	Liver
37	chr19:37188800-37194000	Weak transcription	Adipose Nuclei	Adipose
38	chr19:37188800-37194400	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr19:37188800-37194400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr19:37188800-37194400	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr19:37188800-37194400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr19:37188800-37194400	Weak transcription	Primary hematopoietic stem cells	blood
43	chr19:37188800-37194400	Weak transcription	Aorta	Aorta
44	chr19:37188800-37194400	Weak transcription	Brain Anterior Caudate	brain
45	chr19:37188800-37194400	Weak transcription	Brain Germinal Matrix	brain
46	chr19:37188800-37194400	Weak transcription	Duodenum Mucosa	Duodenum
47	chr19:37188800-37194400	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr19:37188800-37194400	Weak transcription	Fetal Intestine Small	intestine
49	chr19:37188800-37194400	Weak transcription	Left Ventricle	heart
50	chr19:37188800-37194400	Weak transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links