Variant report

Variant	rs9879503
Chromosome Location	chr3:141170661-141170662
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:21)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:21 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:141022868..141024851-chr3:141170597..141172187,2	MCF-7	breast:
2	chr3:141078410..141082494-chr3:141170544..141172496,3	MCF-7	breast:
3	chr3:141026506..141030618-chr3:141169234..141171603,4	MCF-7	breast:
4	chr3:141169931..141172145-chr3:141175203..141179161,4	K562	blood:
5	chr3:141030674..141032798-chr3:141168575..141172474,3	K562	blood:
6	chr3:141163698..141166261-chr3:141168947..141171763,3	MCF-7	breast:
7	chr3:141030343..141031265-chr3:141170565..141171975,8	K562	blood:
8	chr3:141084098..141087550-chr3:141168152..141171297,3	MCF-7	breast:
9	chr3:141164105..141165870-chr3:141170632..141173126,2	K562	blood:
10	chr3:140949389..140951483-chr3:141169503..141172131,2	K562	blood:
11	chr3:141029632..141032040-chr3:141170273..141172073,2	K562	blood:
12	chr3:141169710..141171431-chr3:141177334..141179161,2	K562	blood:
13	chr3:141164105..141166380-chr3:141168817..141173824,4	K562	blood:
14	chr3:141160372..141162712-chr3:141168318..141171011,2	MCF-7	breast:
15	chr3:141030604..141031173-chr3:141170546..141171365,3	MCF-7	breast:
16	chr3:141079682..141080290-chr3:141170633..141171265,2	K562	blood:
17	chr3:141079302..141080674-chr3:141170565..141171750,10	MCF-7	breast:
18	chr3:141169773..141172290-chr3:141203531..141206509,2	MCF-7	breast:
19	chr3:141118015..141122329-chr3:141169792..141173492,5	MCF-7	breast:
20	chr3:141082713..141089087-chr3:141169228..141173800,5	K562	blood:
21	chr3:141079407..141080028-chr3:141170532..141171147,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000155903	Chromatin interaction
ENSG00000177311	Chromatin interaction
ENSG00000155893	Chromatin interaction
ENSG00000249417	Chromatin interaction
ENSG00000249540	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11711375	0.81[CEU][hapmap];0.94[JPT][hapmap];0.91[YRI][hapmap]
rs11917587	0.94[JPT][hapmap]
rs1366042	0.81[CEU][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes]
rs1493209	0.94[JPT][hapmap]
rs1582875	0.82[CEU][hapmap];0.91[YRI][hapmap];0.80[AFR][1000 genomes]
rs16851435	0.95[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs16851438	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs16851441	0.84[JPT][hapmap]
rs16851483	0.83[JPT][hapmap]
rs1863867	1.00[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap];0.87[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2035935	0.83[JPT][hapmap]
rs2042864	0.82[CEU][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes]
rs2312193	0.83[JPT][hapmap]
rs2639997	0.83[JPT][hapmap]
rs2640017	0.83[JPT][hapmap]
rs295299	0.83[JPT][hapmap]
rs295300	0.83[JPT][hapmap]
rs295320	0.94[JPT][hapmap]
rs295323	0.94[JPT][hapmap];0.82[YRI][hapmap]
rs3732869	0.84[JPT][hapmap]
rs3806646	0.94[JPT][hapmap]
rs3821709	0.82[JPT][hapmap]
rs3821710	0.94[JPT][hapmap]
rs3821712	0.94[JPT][hapmap]
rs4683404	0.80[CHB][hapmap];0.82[JPT][hapmap]
rs4683610	0.83[JPT][hapmap]
rs6767158	0.94[JPT][hapmap];0.91[YRI][hapmap]
rs6785874	0.94[JPT][hapmap];0.91[YRI][hapmap]
rs6795168	0.94[JPT][hapmap];0.91[YRI][hapmap]
rs6800122	0.94[JPT][hapmap];0.91[YRI][hapmap]
rs6808837	0.94[JPT][hapmap]
rs7612543	0.88[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7626871	0.83[JPT][hapmap]
rs7627807	0.83[JPT][hapmap]
rs7632308	0.86[YRI][hapmap]
rs7643837	0.94[JPT][hapmap];0.91[YRI][hapmap]
rs9289631	0.87[AFR][1000 genomes]
rs9813177	0.91[YRI][hapmap]
rs9878347	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829744	chr3:141016749-141189168	Genic enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 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	chr3:141132200-141171000	Weak transcription	Primary B cells from cord blood	blood
2	chr3:141155400-141170800	Weak transcription	Fetal Thymus	thymus
3	chr3:141160400-141174000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:141162400-141170800	Weak transcription	Stomach Mucosa	stomach
5	chr3:141162600-141171200	Weak transcription	Thymus	Thymus
6	chr3:141163000-141174000	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:141163600-141171200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr3:141163600-141171200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr3:141164000-141174000	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr3:141164200-141170800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr3:141164200-141173600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:141164200-141176400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:141164400-141171000	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr3:141164400-141171200	Weak transcription	Primary T cells from cord blood	blood
15	chr3:141164400-141173200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:141164400-141173600	Weak transcription	Colonic Mucosa	Colon
17	chr3:141164600-141173000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr3:141164600-141173600	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr3:141164800-141170800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr3:141164800-141170800	Weak transcription	Fetal Kidney	kidney
21	chr3:141164800-141171200	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr3:141164800-141173000	Weak transcription	Gastric	stomach
23	chr3:141164800-141173400	Weak transcription	Brain Substantia Nigra	brain
24	chr3:141164800-141174400	Weak transcription	Fetal Muscle Trunk	muscle
25	chr3:141165000-141173800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:141166400-141170800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr3:141166400-141173600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr3:141166600-141170800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr3:141166600-141170800	Weak transcription	Brain Angular Gyrus	brain
30	chr3:141166600-141170800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr3:141166600-141170800	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr3:141166600-141170800	Weak transcription	Small Intestine	intestine
33	chr3:141166600-141171200	Weak transcription	Brain Anterior Caudate	brain
34	chr3:141166600-141171200	Weak transcription	Fetal Intestine Large	intestine
35	chr3:141166600-141171200	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr3:141166600-141171800	Weak transcription	HSMMtube	muscle
37	chr3:141166600-141172600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr3:141166600-141173400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr3:141166600-141173600	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr3:141166600-141174200	Weak transcription	Ovary	ovary
41	chr3:141166600-141174600	Weak transcription	Fetal Muscle Leg	muscle
42	chr3:141166600-141176600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr3:141166600-141181600	Weak transcription	Pancreas	Pancrea
44	chr3:141166800-141170800	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr3:141166800-141170800	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr3:141166800-141170800	Weak transcription	Duodenum Mucosa	Duodenum
47	chr3:141166800-141170800	Weak transcription	Fetal Lung	lung
48	chr3:141166800-141171000	Weak transcription	Liver	Liver
49	chr3:141166800-141171000	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr3:141166800-141173600	Weak transcription	Adipose Nuclei	Adipose

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