Variant report

Variant	rs11755032
Chromosome Location	chr6:28255277-28255278
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28245880..28256877-chr6:28299741..28307557,21	K562	blood:
2	chr6:28251868..28254160-chr6:28254261..28256025,2	MCF-7	breast:
3	chr6:28246849..28251135-chr6:28253254..28258623,13	K562	blood:
4	chr6:28255210..28257728-chr6:28316331..28318308,2	K562	blood:

Variant related genes	Relation type
ENSG00000189298	Chromatin interaction
ENSG00000137338	Chromatin interaction
ENSG00000235109	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10456362	0.82[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1076639	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11965538	0.82[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs13200462	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1339899	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1419183	0.82[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1679709	0.82[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1679732	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs16894011	0.82[ASW][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs1778507	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.97[ASN][1000 genomes]
rs1778508	0.82[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1778511	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17856167	1.00[CEU][hapmap]
rs1936365	0.82[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs213239	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs213241	0.84[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs213243	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs213244	0.84[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2743554	0.82[CEU][hapmap];0.82[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2743555	0.89[ASN][1000 genomes]
rs2799077	0.82[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2799079	0.81[CHB][hapmap];0.89[CHD][hapmap];0.89[ASN][1000 genomes]
rs61127718	0.83[ASN][1000 genomes]
rs68141011	0.90[ASN][1000 genomes]
rs6901575	0.89[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap]
rs6905391	0.88[ASN][1000 genomes]
rs6920512	1.00[CHB][hapmap];0.95[ASN][1000 genomes]
rs73742521	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7740487	0.88[ASN][1000 genomes]
rs853676	0.82[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs853678	0.82[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs853679	0.82[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs853681	0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs853685	0.82[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs853687	0.82[CEU][hapmap];0.90[CHB][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs853688	0.83[ASN][1000 genomes]
rs853694	0.89[ASN][1000 genomes]
rs9295765	1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs9295766	0.82[ASN][1000 genomes]
rs9295767	0.82[ASN][1000 genomes]
rs9366717	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs9380051	0.83[TSI][hapmap]
rs9380069	0.91[GIH][hapmap]
rs9393902	0.83[TSI][hapmap]
rs9393908	0.90[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs9461446	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.97[ASN][1000 genomes]
rs9461448	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];0.97[MKK][hapmap];1.00[TSI][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]
rs9461449	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][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]
rs9468321	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9468322	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.97[ASN][1000 genomes]
rs9468325	0.82[ASN][1000 genomes]
rs9468342	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9468345	0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9986596	0.90[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	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11755032	ZSCAN31	cis	Nerve Tibial	GTEx
rs11755032	ZSCAN31	cis	Thyroid	GTEx

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28249800-28272200	Weak transcription	Spleen	Spleen
2	chr6:28250000-28258000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:28250000-28258600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr6:28250000-28277600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr6:28250000-28293800	Weak transcription	Gastric	stomach
6	chr6:28250200-28273800	Weak transcription	Thymus	Thymus
7	chr6:28250400-28265600	Weak transcription	Primary T cells from cord blood	blood
8	chr6:28250400-28278600	Weak transcription	Duodenum Mucosa	Duodenum
9	chr6:28250600-28267000	Weak transcription	NHEK	skin
10	chr6:28250600-28270800	Weak transcription	Fetal Heart	heart
11	chr6:28250600-28280600	Weak transcription	Rectal Smooth Muscle	rectum
12	chr6:28250800-28256400	Strong transcription	A549	lung
13	chr6:28250800-28257600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:28250800-28270000	Weak transcription	Psoas Muscle	Psoas
15	chr6:28250800-28276800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr6:28251000-28255600	Strong transcription	Brain Substantia Nigra	brain
17	chr6:28251000-28258200	Strong transcription	Fetal Muscle Leg	muscle
18	chr6:28251000-28258600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:28251000-28258600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr6:28251000-28270800	Weak transcription	Colonic Mucosa	Colon
21	chr6:28251000-28273800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr6:28251000-28277200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr6:28251000-28278800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr6:28251200-28256600	Strong transcription	Fetal Lung	lung
25	chr6:28251200-28257200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr6:28251200-28257600	Strong transcription	Duodenum Smooth Muscle	Duodenum
27	chr6:28251200-28258400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr6:28251200-28258400	Strong transcription	Cortex derived primary cultured neurospheres	brain
29	chr6:28251200-28259000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:28251200-28259400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr6:28251400-28255600	Strong transcription	K562	blood
32	chr6:28251400-28256200	Strong transcription	Skeletal Muscle Female	skeletal muscle
33	chr6:28251400-28256600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
34	chr6:28251400-28257400	Strong transcription	Adipose Nuclei	Adipose
35	chr6:28251400-28258000	Strong transcription	Fetal Brain Female	brain
36	chr6:28251400-28262200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr6:28251600-28256200	Strong transcription	Stomach Smooth Muscle	stomach
38	chr6:28251600-28257600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr6:28251600-28258200	Strong transcription	Colon Smooth Muscle	Colon
40	chr6:28251600-28258200	Strong transcription	Fetal Muscle Trunk	muscle
41	chr6:28251600-28258400	Strong transcription	HUES48 Cell Line	embryonic stem cell
42	chr6:28251600-28258400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr6:28251600-28258400	Strong transcription	Primary hematopoietic stem cells	blood
44	chr6:28251600-28258400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr6:28251800-28256400	Strong transcription	Brain Cingulate Gyrus	brain
46	chr6:28251800-28257600	Strong transcription	HUES6 Cell Line	embryonic stem cell
47	chr6:28251800-28257600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr6:28251800-28257600	Strong transcription	Brain Angular Gyrus	brain
49	chr6:28251800-28257600	Strong transcription	Skeletal Muscle Male	skeletal muscle
50	chr6:28251800-28257800	Strong transcription	iPS-18 Cell Line	embryonic stem cell

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