Variant report

Variant	rs6925243
Chromosome Location	chr6:34381937-34381938
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:34206861..34220421-chr6:34379359..34386848,24	K562	blood:
2	chr6:34164046..34167260-chr6:34381691..34384552,3	K562	blood:
3	chr6:34379437..34382145-chr6:34384252..34386142,2	MCF-7	breast:
4	chr6:34361587..34363942-chr6:34380627..34382565,2	MCF-7	breast:
5	chr6:34210046..34211702-chr6:34381668..34384170,2	MCF-7	breast:
6	chr6:34356693..34361584-chr6:34376924..34385699,12	K562	blood:
7	chr6:34212124..34218246-chr6:34379945..34387655,19	K562	blood:
8	chr6:34199984..34203528-chr6:34381840..34383462,3	K562	blood:
9	chr6:34204263..34206789-chr6:34380798..34383296,3	K562	blood:
10	chr6:34204518..34207375-chr6:34381425..34383051,2	MCF-7	breast:
11	chr6:34380846..34383756-chr6:34617372..34620116,2	K562	blood:
12	chr6:34358999..34362985-chr6:34379646..34383130,5	MCF-7	breast:
13	chr6:34240626..34242765-chr6:34381088..34382672,2	K562	blood:
14	chr6:34381801..34383891-chr6:34543770..34545644,2	K562	blood:
15	chr6:34162021..34165758-chr6:34380623..34387316,6	K562	blood:
16	chr6:34202204..34208226-chr6:34378240..34384748,6	K562	blood:
17	chr6:34163606..34165141-chr6:34381217..34383294,2	MCF-7	breast:
18	chr6:34164779..34167229-chr6:34380902..34383659,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000272325	Chromatin interaction
ENSG00000196114	Chromatin interaction
ENSG00000137309	Chromatin interaction
ENSG00000186577	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs12662460	0.83[ASN][1000 genomes]
rs12664001	0.83[ASN][1000 genomes]
rs12664016	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12665397	0.87[ASN][1000 genomes]
rs16885998	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs16889678	0.80[YRI][hapmap]
rs16889706	0.95[CHB][hapmap];0.95[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs16889714	0.91[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs1811968	0.84[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2006833	0.89[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs206919	0.94[ASW][hapmap];0.93[CHD][hapmap];0.82[JPT][hapmap];0.81[LWK][hapmap];0.89[MKK][hapmap];0.93[YRI][hapmap];0.82[ASN][1000 genomes]
rs206920	0.80[ASN][1000 genomes]
rs206921	0.94[ASW][hapmap];0.93[CHD][hapmap];0.85[JPT][hapmap];0.80[LWK][hapmap];0.82[MKK][hapmap];0.93[YRI][hapmap]
rs206936	0.83[ASW][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap]
rs206941	0.93[YRI][hapmap]
rs206942	0.89[ASW][hapmap];0.89[CHD][hapmap];0.81[LWK][hapmap];0.84[MKK][hapmap];0.93[YRI][hapmap]
rs28847046	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3778077	0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs3798560	0.94[ASW][hapmap];0.93[CHD][hapmap];0.82[JPT][hapmap];0.81[LWK][hapmap];0.89[MKK][hapmap];0.93[YRI][hapmap]
rs3798562	0.83[CHB][hapmap];0.81[CHD][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs3798564	0.91[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs414739	0.82[JPT][hapmap];0.93[YRI][hapmap]
rs4295465	0.80[AMR][1000 genomes]
rs4587164	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs464553	0.83[ASW][hapmap];0.91[CHD][hapmap];0.82[JPT][hapmap]
rs4711390	0.83[CHB][hapmap];0.83[CHD][hapmap];0.91[JPT][hapmap]
rs4713770	0.81[JPT][hapmap]
rs4713774	0.83[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs4713775	0.87[ASN][1000 genomes]
rs4713776	0.86[ASN][1000 genomes]
rs4713777	0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4713780	0.86[ASN][1000 genomes]
rs4713781	0.87[ASN][1000 genomes]
rs4713786	0.81[AMR][1000 genomes]
rs4713789	0.85[AMR][1000 genomes]
rs568502	0.93[YRI][hapmap]
rs58648597	0.87[ASN][1000 genomes]
rs611928	0.94[ASW][hapmap];0.91[CHD][hapmap];0.81[LWK][hapmap];0.84[MKK][hapmap];0.93[YRI][hapmap]
rs61582147	0.81[AMR][1000 genomes]
rs62399909	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6912971	0.83[ASW][hapmap];0.91[CHD][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs6924482	0.88[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs6924682	0.87[CHB][hapmap];0.89[CHD][hapmap];0.80[GIH][hapmap];0.95[JPT][hapmap]
rs6930978	0.88[ASW][hapmap];0.91[CHD][hapmap];0.81[LWK][hapmap];0.84[MKK][hapmap];1.00[YRI][hapmap]
rs6935129	0.85[ASN][1000 genomes]
rs7752035	0.87[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs7757900	0.81[ASN][1000 genomes]
rs7775635	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9368813	0.81[ASN][1000 genomes]
rs9380433	0.85[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs9394214	0.81[ASN][1000 genomes]
rs9394215	0.80[ASN][1000 genomes]
rs9461981	0.81[ASN][1000 genomes]
rs9469778	0.82[AFR][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	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6925243	RPS10	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34361000-34384800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr6:34361200-34382400	Weak transcription	Pancreas	Pancrea
3	chr6:34361200-34384800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:34361800-34382400	Weak transcription	Fetal Intestine Small	intestine
5	chr6:34362200-34382000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr6:34370000-34383400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:34371200-34383400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:34371400-34384000	Weak transcription	Right Ventricle	heart
9	chr6:34372400-34389400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr6:34373000-34382400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr6:34375200-34382400	Weak transcription	K562	blood
12	chr6:34375200-34383600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr6:34375600-34383600	Weak transcription	Fetal Brain Female	brain
14	chr6:34375800-34382000	Weak transcription	Dnd41	blood
15	chr6:34376600-34382600	Weak transcription	Stomach Smooth Muscle	stomach
16	chr6:34377200-34382400	Weak transcription	Small Intestine	intestine
17	chr6:34377200-34384800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr6:34377400-34382000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr6:34377400-34382000	Weak transcription	Brain Germinal Matrix	brain
20	chr6:34377400-34382400	Weak transcription	Duodenum Mucosa	Duodenum
21	chr6:34377400-34382600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr6:34377400-34382600	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:34377400-34383400	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr6:34377400-34383400	Weak transcription	Lung	lung
25	chr6:34377400-34383800	Weak transcription	Esophagus	oesophagus
26	chr6:34377400-34385000	Weak transcription	Psoas Muscle	Psoas
27	chr6:34377600-34382200	Weak transcription	Adipose Nuclei	Adipose
28	chr6:34378000-34382200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:34378000-34383600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr6:34378400-34382600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr6:34378600-34382000	Weak transcription	Primary T cells fromperipheralblood	blood
32	chr6:34378600-34382800	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr6:34378600-34382800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:34378600-34383400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr6:34378600-34383800	Weak transcription	Left Ventricle	heart
36	chr6:34378800-34382600	Weak transcription	Rectal Smooth Muscle	rectum
37	chr6:34378800-34383600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr6:34378800-34383800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr6:34378800-34383800	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr6:34378800-34385000	Weak transcription	Aorta	Aorta
41	chr6:34379000-34383400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr6:34379000-34383800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr6:34379000-34383800	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr6:34379200-34382400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr6:34379200-34382400	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr6:34379200-34382400	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr6:34379200-34382800	Weak transcription	Primary B cells from peripheral blood	blood
48	chr6:34379200-34384800	Weak transcription	Hela-S3	cervix
49	chr6:34379200-34384800	Weak transcription	HSMMtube	muscle
50	chr6:34379200-34385400	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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