Variant report

Variant	rs73597829
Chromosome Location	chr20:25664553-25664554
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:25650737..25652404-chr20:25662026..25664673,2	K562	blood:
2	chr20:25638905..25641793-chr20:25662491..25665078,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236542	Chromatin interaction

Extended variants
information (count: 116 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs1076690	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1122769	0.84[EUR][1000 genomes]
rs12106001	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12106173	0.86[EUR][1000 genomes]
rs16988014	0.84[EUR][1000 genomes]
rs2388026	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs242133	0.91[AMR][1000 genomes]
rs35516971	0.94[AMR][1000 genomes]
rs3764695	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4098823	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4098824	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4113658	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4113659	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4113662	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs41308623	0.97[AMR][1000 genomes]
rs4343537	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4574179	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs57638633	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58169034	0.86[EUR][1000 genomes]
rs6037159	0.91[AMR][1000 genomes]
rs6037161	0.91[AMR][1000 genomes]
rs6037164	0.91[AMR][1000 genomes]
rs6037166	0.83[AMR][1000 genomes]
rs6037167	0.97[AMR][1000 genomes]
rs6037179	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6037180	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6037192	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6037193	0.97[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6037195	0.86[EUR][1000 genomes]
rs6037198	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6037199	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6037204	0.87[ASN][1000 genomes]
rs6037205	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6037208	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6037212	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6037217	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6037220	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6037223	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6050692	0.85[AMR][1000 genomes]
rs6050707	0.85[AMR][1000 genomes]
rs6050709	0.86[AMR][1000 genomes]
rs6050710	0.91[AMR][1000 genomes]
rs6050712	0.91[AMR][1000 genomes]
rs6050714	0.88[AMR][1000 genomes]
rs6050717	0.91[AMR][1000 genomes]
rs6050720	0.91[AMR][1000 genomes]
rs6050723	0.91[AMR][1000 genomes]
rs6050724	0.91[AMR][1000 genomes]
rs6050725	0.97[AMR][1000 genomes]
rs6050726	0.97[AMR][1000 genomes]
rs6050727	0.97[AMR][1000 genomes]
rs6050729	0.97[AMR][1000 genomes]
rs6050730	0.97[AMR][1000 genomes]
rs6050732	0.97[AMR][1000 genomes]
rs6050733	0.97[AMR][1000 genomes]
rs6050737	0.97[AMR][1000 genomes]
rs6050743	0.97[AMR][1000 genomes]
rs6050745	0.97[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6050749	0.97[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6050753	0.97[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6050754	0.97[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6050755	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6050756	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6050758	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050763	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6050765	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050768	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050775	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050787	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050788	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050789	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050793	0.86[EUR][1000 genomes]
rs6050795	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050799	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050802	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050804	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050807	0.86[EUR][1000 genomes]
rs6050809	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050813	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050815	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6050816	0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6050832	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050834	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050835	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050838	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050841	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050846	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050847	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050848	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050851	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050853	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050854	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73341361	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73341397	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73343217	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73343255	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73345232	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73345259	0.86[EUR][1000 genomes]
rs73345280	0.84[EUR][1000 genomes]
rs7346687	0.94[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs8116267	0.84[EUR][1000 genomes]
rs8116474	0.88[EUR][1000 genomes]
rs8120065	0.91[AMR][1000 genomes]
rs8120594	0.91[AMR][1000 genomes]
rs8121013	0.97[AMR][1000 genomes]
rs8121648	0.86[EUR][1000 genomes]
rs8122516	0.88[EUR][1000 genomes]
rs8122589	0.93[EUR][1000 genomes]
rs8126236	0.97[AMR][1000 genomes]
rs926487	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9753575	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs981440	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs981441	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9941769	0.86[EUR][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	nsv912834	chr20:25615272-25756336	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats 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	14 gene(s)	inside rSNPs	diseases
2	nsv1056288	chr20:25662941-25744711	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs73597829	ZNF337	cis	Adipose Subcutaneous	GTEx
rs73597829	RP4-694B14.5	cis	lung	GTEx
rs73597829	RP4-694B14.5	cis	Adipose Subcutaneous	GTEx
rs73597829	ZNF337	cis	Stomach	GTEx
rs73597829	RP4-694B14.5	cis	Thyroid	GTEx
rs73597829	ZNF337	cis	lung	GTEx
rs73597829	RP4-694B14.5	cis	Stomach	GTEx
rs73597829	ZNF337	cis	Thyroid	GTEx

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25656600-25667200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr20:25657200-25666000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr20:25657200-25667200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr20:25657200-25674200	Weak transcription	Fetal Heart	heart
5	chr20:25657400-25666000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr20:25657400-25666000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr20:25657400-25666000	Weak transcription	Psoas Muscle	Psoas
8	chr20:25657400-25666600	Weak transcription	Pancreas	Pancrea
9	chr20:25657400-25676200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr20:25657600-25665800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr20:25657600-25665800	Weak transcription	Right Ventricle	heart
12	chr20:25657600-25665800	Weak transcription	Spleen	Spleen
13	chr20:25657600-25666000	Weak transcription	Brain Substantia Nigra	brain
14	chr20:25657600-25666000	Weak transcription	Esophagus	oesophagus
15	chr20:25657600-25666000	Weak transcription	Gastric	stomach
16	chr20:25657600-25666000	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr20:25657600-25666600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr20:25657600-25667200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr20:25657600-25672200	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr20:25657600-25672600	Weak transcription	Fetal Brain Male	brain
21	chr20:25657600-25676000	Weak transcription	Stomach Mucosa	stomach
22	chr20:25657600-25676200	Weak transcription	Hela-S3	cervix
23	chr20:25657600-25676200	Weak transcription	K562	blood
24	chr20:25657600-25676400	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr20:25657800-25665200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr20:25657800-25667000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr20:25657800-25667200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr20:25657800-25676000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr20:25657800-25676200	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr20:25657800-25676200	Weak transcription	Colonic Mucosa	Colon
31	chr20:25657800-25676200	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr20:25658000-25667200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr20:25658200-25676200	Weak transcription	Fetal Kidney	kidney
34	chr20:25658400-25676200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr20:25658600-25665800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr20:25658600-25666000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr20:25658800-25676200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr20:25659000-25676000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr20:25659600-25666000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr20:25659600-25666000	Weak transcription	Aorta	Aorta
41	chr20:25659600-25666000	Weak transcription	Fetal Intestine Small	intestine
42	chr20:25659600-25667600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr20:25660600-25676000	Weak transcription	HUVEC	blood vessel
44	chr20:25661000-25666000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr20:25661600-25664800	Strong transcription	Fetal Muscle Trunk	muscle
46	chr20:25661800-25664800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr20:25662000-25665800	Weak transcription	Brain Anterior Caudate	brain
48	chr20:25662000-25666000	Weak transcription	Brain Angular Gyrus	brain
49	chr20:25662200-25665200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr20:25662200-25665800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links