Variant report

Variant	rs10936027
Chromosome Location	chr3:156256407-156256408
allele	G/T
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:156255091..156257756-chr3:156296405..156299057,2	K562	blood:
2	chr3:156254995..156257951-chr3:156406375..156408006,2	K562	blood:
3	chr3:156254209..156257185-chr3:156353690..156355204,2	K562	blood:
4	chr3:156256280..156259160-chr3:156390953..156393819,2	MCF-7	breast:
5	chr3:156227311..156228240-chr3:156255820..156256731,2	K562	blood:
6	chr3:156165868..156167744-chr3:156256177..156258339,2	K562	blood:
7	chr3:156256323..156258307-chr3:156531885..156534419,2	MCF-7	breast:
8	chr3:156254673..156257232-chr3:156395894..156398875,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000163659	Chromatin interaction
ENSG00000243926	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11710396	0.87[ASN][1000 genomes]
rs12107507	1.00[YRI][hapmap]
rs13065924	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs13068904	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13083246	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13088140	0.90[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs17354147	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2874390	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs3773717	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3773719	0.96[ASN][1000 genomes]
rs6441074	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs6441075	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs6441076	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs6764265	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6764992	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771728	1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6802811	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71310479	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71310481	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs756335	0.90[CEU][hapmap]
rs7619602	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs8665	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs9837799	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9917691	0.96[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	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv829764	chr3:156174824-156347774	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases
3	nsv877683	chr3:156180366-156272351	Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10936027	SSR3	cis	lymphoblastoid	seeQTL
rs10936027	SSR3	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156240400-156260200	Weak transcription	Esophagus	oesophagus
2	chr3:156243200-156256600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr3:156243200-156256800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr3:156243200-156256800	Weak transcription	GM12878-XiMat	blood
5	chr3:156243200-156257000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr3:156243200-156257000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr3:156243200-156258800	Weak transcription	Primary B cells from peripheral blood	blood
8	chr3:156243400-156256600	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr3:156243400-156256800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr3:156244000-156257000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr3:156244600-156257000	Weak transcription	Lung	lung
12	chr3:156245000-156257000	Weak transcription	Spleen	Spleen
13	chr3:156245400-156257200	Weak transcription	Fetal Brain Male	brain
14	chr3:156246800-156263600	Weak transcription	Fetal Brain Female	brain
15	chr3:156247200-156263800	Weak transcription	Thymus	Thymus
16	chr3:156247600-156257200	Weak transcription	Hela-S3	cervix
17	chr3:156248000-156257000	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr3:156248800-156257000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:156249000-156264600	Weak transcription	Brain Germinal Matrix	brain
20	chr3:156250600-156257000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr3:156251600-156259200	Weak transcription	Ovary	ovary
22	chr3:156252000-156257000	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr3:156252000-156257000	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr3:156252000-156257000	Weak transcription	Primary T cells from cord blood	blood
25	chr3:156252000-156263200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr3:156252000-156270200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr3:156252200-156257000	Weak transcription	Aorta	Aorta
28	chr3:156252200-156268600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr3:156252600-156256600	Weak transcription	Fetal Lung	lung
30	chr3:156253000-156256800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr3:156253000-156259200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr3:156253400-156256800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:156253400-156256800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr3:156253400-156257000	Weak transcription	Fetal Muscle Trunk	muscle
35	chr3:156253400-156257400	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr3:156253400-156260800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr3:156253400-156268200	Weak transcription	Gastric	stomach
38	chr3:156253600-156257000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr3:156253600-156257000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr3:156253600-156257000	Weak transcription	Fetal Thymus	thymus
41	chr3:156253600-156260200	Weak transcription	Fetal Stomach	stomach
42	chr3:156253600-156268200	Weak transcription	Small Intestine	intestine
43	chr3:156253600-156271400	Weak transcription	Stomach Mucosa	stomach
44	chr3:156253800-156256800	Weak transcription	Fetal Muscle Leg	muscle
45	chr3:156253800-156257000	Weak transcription	Colonic Mucosa	Colon
46	chr3:156253800-156257000	Weak transcription	Fetal Intestine Small	intestine
47	chr3:156253800-156257000	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr3:156253800-156257400	Weak transcription	Fetal Kidney	kidney
49	chr3:156253800-156258600	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr3:156253800-156258800	Weak transcription	Brain Substantia Nigra	brain

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