Variant report

Variant	rs10009332
Chromosome Location	chr4:6939032-6939033
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:6909448..6911540-chr4:6938738..6940737,2	K562	blood:
2	chr4:6919019..6922027-chr4:6936429..6940367,3	K562	blood:
3	chr4:6936494..6939195-chr4:6954346..6955896,2	K562	blood:
4	chr4:6934884..6936553-chr4:6937948..6940136,2	K562	blood:
5	chr4:6918904..6922027-chr4:6935797..6939427,3	K562	blood:

Variant related genes	Relation type
ENSG00000132405	Chromatin interaction
ENSG00000265953	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10012305	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10013211	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10013696	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10015163	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10019900	0.83[ASN][1000 genomes]
rs10022869	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10155208	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10937766	0.87[ASN][1000 genomes]
rs10937768	0.86[ASN][1000 genomes]
rs10937769	0.97[ASN][1000 genomes]
rs10937770	0.86[ASN][1000 genomes]
rs10937771	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11723651	0.86[ASN][1000 genomes]
rs11723686	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11723719	0.86[ASN][1000 genomes]
rs11728984	0.86[ASN][1000 genomes]
rs11731639	0.86[ASN][1000 genomes]
rs11731681	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11732887	0.81[ASN][1000 genomes]
rs11733522	0.80[ASN][1000 genomes]
rs11736355	0.86[ASN][1000 genomes]
rs11930747	0.82[ASN][1000 genomes]
rs12499678	0.86[ASN][1000 genomes]
rs12512922	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12646620	0.88[ASN][1000 genomes]
rs12646621	0.88[ASN][1000 genomes]
rs12650200	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12650264	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13103361	0.88[ASN][1000 genomes]
rs13140943	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13149280	0.83[ASN][1000 genomes]
rs17742611	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17743234	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2301820	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2301821	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28380685	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28392702	0.96[ASN][1000 genomes]
rs28425595	0.86[ASN][1000 genomes]
rs28463777	0.88[ASN][1000 genomes]
rs28523495	0.88[ASN][1000 genomes]
rs28703753	0.84[ASN][1000 genomes]
rs34173965	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34760356	0.82[EUR][1000 genomes]
rs35296019	0.87[ASN][1000 genomes]
rs35490604	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3857168	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3857169	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3857170	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3892145	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3892976	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4234790	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4290891	0.86[ASN][1000 genomes]
rs4315786	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4484301	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4608812	0.82[ASN][1000 genomes]
rs4689057	0.81[ASN][1000 genomes]
rs4689558	0.82[EUR][1000 genomes]
rs4689562	0.88[ASN][1000 genomes]
rs4689571	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4689572	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56307635	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61488923	0.86[ASN][1000 genomes]
rs62292202	0.86[ASN][1000 genomes]
rs6446553	0.88[ASN][1000 genomes]
rs6831368	0.81[ASN][1000 genomes]
rs6831590	0.88[ASN][1000 genomes]
rs6834007	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6852468	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7657702	0.82[EUR][1000 genomes]
rs7664348	0.80[ASN][1000 genomes]
rs7672632	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9291121	0.82[ASN][1000 genomes]
rs9291122	0.87[ASN][1000 genomes]
rs9291123	0.97[ASN][1000 genomes]
rs9291124	0.86[ASN][1000 genomes]
rs9999025	0.83[ASN][1000 genomes]
rs9999127	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878529	chr4:6883012-6983677	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv878530	chr4:6888932-7058473	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv980396	chr4:6929613-6942211	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:6919600-6942200	Weak transcription	Hela-S3	cervix
2	chr4:6920200-6939600	Weak transcription	HUVEC	blood vessel
3	chr4:6926200-6942000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr4:6926200-6942600	Weak transcription	NHEK	skin
5	chr4:6926200-6943200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr4:6926600-6939200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr4:6928000-6939200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr4:6928000-6942000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr4:6928000-6969600	Weak transcription	Aorta	Aorta
10	chr4:6929000-6942000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr4:6929000-6942200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr4:6929200-6942000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr4:6929400-6942400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr4:6929600-6942400	Weak transcription	Small Intestine	intestine
15	chr4:6929800-6939200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr4:6929800-6943200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr4:6930000-6940400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr4:6930600-6939200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr4:6931400-6940000	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr4:6931400-6943200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr4:6931600-6940800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr4:6931600-6942000	Weak transcription	Colon Smooth Muscle	Colon
23	chr4:6932000-6939200	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr4:6932000-6939200	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr4:6932000-6939800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr4:6932000-6940000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr4:6932000-6941600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr4:6932000-6942000	Weak transcription	Stomach Mucosa	stomach
29	chr4:6932000-6943400	Weak transcription	Fetal Brain Female	brain
30	chr4:6932000-6943400	Weak transcription	Fetal Kidney	kidney
31	chr4:6932200-6939200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr4:6932200-6939200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr4:6932200-6939400	Weak transcription	Primary B cells from cord blood	blood
34	chr4:6932200-6939400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr4:6932200-6939800	Weak transcription	Left Ventricle	heart
36	chr4:6932200-6939800	Weak transcription	Right Atrium	heart
37	chr4:6932200-6940800	Weak transcription	Primary T cells from cord blood	blood
38	chr4:6932200-6943200	Weak transcription	Rectal Smooth Muscle	rectum
39	chr4:6932400-6939200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr4:6933000-6939200	Weak transcription	Fetal Muscle Trunk	muscle
41	chr4:6933400-6939200	Weak transcription	Fetal Muscle Leg	muscle
42	chr4:6933400-6939400	Weak transcription	Pancreas	Pancrea
43	chr4:6933400-6942200	Weak transcription	Psoas Muscle	Psoas
44	chr4:6933600-6939200	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chr4:6933600-6939400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr4:6933800-6939200	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr4:6934400-6946400	Enhancers	Placenta	Placenta
48	chr4:6934600-6939400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr4:6934800-6939200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr4:6934800-6939200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

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