Variant report

Variant	rs4713777
Chromosome Location	chr6:34380137-34380138
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:34206861..34220421-chr6:34379359..34386848,24	K562	blood:
2	chr6:34379437..34382145-chr6:34384252..34386142,2	MCF-7	breast:
3	chr6:34356693..34361584-chr6:34376924..34385699,12	K562	blood:
4	chr6:34212124..34218246-chr6:34379945..34387655,19	K562	blood:
5	chr6:34358999..34362985-chr6:34379646..34383130,5	MCF-7	breast:
6	chr6:34379707..34381540-chr6:34384149..34385889,2	MCF-7	breast:
7	chr6:34202204..34208226-chr6:34378240..34384748,6	K562	blood:

Variant related genes	Relation type
ENSG00000137309	Chromatin interaction
ENSG00000186577	Chromatin interaction
ENSG00000272325	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	0.90[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12664001	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12664016	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12665397	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16885998	0.87[CHB][hapmap];0.83[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes]
rs16889706	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16889714	0.95[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs206919	0.88[CHD][hapmap];0.82[JPT][hapmap]
rs206921	0.88[CHD][hapmap];0.85[JPT][hapmap]
rs206936	0.86[CHD][hapmap];0.86[JPT][hapmap]
rs206942	0.84[CHD][hapmap]
rs2071928	0.82[AMR][1000 genomes]
rs28847046	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs34384951	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3778077	0.86[GIH][hapmap];0.91[JPT][hapmap];0.87[MEX][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3798560	0.88[CHD][hapmap];0.82[JPT][hapmap]
rs3798562	0.87[CHB][hapmap];0.83[CHD][hapmap];0.82[GIH][hapmap];0.91[JPT][hapmap];0.83[MEX][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3798564	0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3800476	0.88[AMR][1000 genomes]
rs3800477	0.88[AMR][1000 genomes]
rs414739	0.82[JPT][hapmap]
rs4295465	0.88[AMR][1000 genomes]
rs464553	0.86[CHD][hapmap];0.82[JPT][hapmap]
rs4711390	0.87[CHB][hapmap];0.87[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes]
rs4713770	0.81[JPT][hapmap];0.82[AMR][1000 genomes]
rs4713772	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4713773	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4713774	0.87[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4713775	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4713776	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4713780	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4713781	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4713783	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4713784	0.82[MEX][hapmap];0.87[AMR][1000 genomes]
rs4713786	0.87[AMR][1000 genomes]
rs4713787	0.95[AMR][1000 genomes]
rs4713789	0.80[AMR][1000 genomes]
rs4713793	0.83[MEX][hapmap]
rs58648597	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs59310759	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs60100381	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs611928	0.86[CHD][hapmap]
rs61582147	0.89[AMR][1000 genomes]
rs62399909	0.85[ASN][1000 genomes]
rs6912971	0.86[CHD][hapmap];0.82[JPT][hapmap]
rs6924682	0.93[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.96[LWK][hapmap];0.96[MEX][hapmap];0.98[MKK][hapmap];0.82[YRI][hapmap];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6925243	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]
rs6930978	0.86[CHD][hapmap]
rs6935129	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7752035	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7767431	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7775635	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9348940	0.85[AMR][1000 genomes]
rs9766229	0.93[AMR][1000 genomes];0.83[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	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
rs4713777	RPS10	cis	lymphoblastoid	seeQTL

Chromatin state (count:91 , 50 per page) page: 1 2

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	chr6:34377400-34380400	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr6:34377400-34380400	Weak transcription	HSMM	muscle
20	chr6:34377400-34382000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:34377400-34382000	Weak transcription	Brain Germinal Matrix	brain
22	chr6:34377400-34382400	Weak transcription	Duodenum Mucosa	Duodenum
23	chr6:34377400-34382600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:34377400-34382600	Weak transcription	Fetal Muscle Leg	muscle
25	chr6:34377400-34383400	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr6:34377400-34383400	Weak transcription	Lung	lung
27	chr6:34377400-34383800	Weak transcription	Esophagus	oesophagus
28	chr6:34377400-34385000	Weak transcription	Psoas Muscle	Psoas
29	chr6:34377600-34380600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:34377600-34382200	Weak transcription	Adipose Nuclei	Adipose
31	chr6:34377800-34380600	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr6:34378000-34380400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:34378000-34382200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr6:34378000-34383600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr6:34378200-34381200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr6:34378200-34381200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr6:34378400-34380400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr6:34378400-34380400	Weak transcription	A549	lung
39	chr6:34378400-34381200	Strong transcription	Fetal Stomach	stomach
40	chr6:34378400-34382600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr6:34378600-34380400	Weak transcription	Primary hematopoietic stem cells	blood
42	chr6:34378600-34382000	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr6:34378600-34382800	Weak transcription	Primary monocytes fromperipheralblood	blood
44	chr6:34378600-34382800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr6:34378600-34383400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr6:34378600-34383800	Weak transcription	Left Ventricle	heart
47	chr6:34378800-34381800	Weak transcription	Fetal Muscle Trunk	muscle
48	chr6:34378800-34382600	Weak transcription	Rectal Smooth Muscle	rectum
49	chr6:34378800-34383600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr6:34378800-34383800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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