Variant report

Variant	rs11895098
Chromosome Location	chr2:11299997-11299998
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:61)
Chromatin interactive
region (count:2)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr2:11299993-11300043	SKMC	muscle:	n/a
2	chr2:11299993-11300043	AG09319	gingival:	n/a
3	chr2:11299993-11300043	BJ	skin:	n/a
4	chr2:11299993-11300043	SK-N-SH_RA	brain:	n/a
5	chr2:11299993-11300043	GM12878	blood:	n/a
6	chr2:11299993-11300043	IMR90	lung:	fetal
7	chr2:11299993-11300043	AoSMC	blood vessel:	n/a
8	chr2:11299993-11300043	A549	lung:	n/a
9	chr2:11299993-11300043	MCF-7	breast:	n/a
10	chr2:11299993-11300043	Hela-S3	cervix:	n/a
11	chr2:11299993-11300043	HMEC	breast:	n/a
12	chr2:11299993-11300043	HPAEpiC	pulmonary alveolar:	n/a
13	chr2:11299993-11300043	ECC-1	luminal epithelium:	n/a
14	chr2:11299993-11300043	Hepatocyte	liver:	n/a
15	chr2:11299993-11300043	HL-60	blood:	n/a
16	chr2:11299993-11300043	NB4	blood:	n/a
17	chr2:11299993-11300043	AG04449	skin:	fetal
18	chr2:11299993-11300043	NHDF-neo	bronchial:	n/a
19	chr2:11299993-11300043	ProgFib	skin:	n/a
20	chr2:11299993-11300043	NHBE	bronchial:	n/a
21	chr2:11299993-11300043	HEK293	kidney:	embryo
22	chr2:11299993-11300043	SK-N-MC	brain:	n/a
23	chr2:11299993-11300043	HRCEpiC	kidney:	n/a
24	chr2:11299993-11300043	HCPEpiC	choroid plexus:	n/a
25	chr2:11299993-11300043	NH-A	brain:	n/a
26	chr2:11299993-11300043	H1-hESC	embryonic stem cell:	embryo
27	chr2:11299993-11300043	Caco-2	colon:	n/a
28	chr2:11299993-11300043	GM12892	blood:	n/a
29	chr2:11299993-11300043	GM12891	blood:	n/a
30	chr2:11299993-11300043	PrEC	prostate:	n/a
31	chr2:11299993-11300043	CMK	blood:	n/a
32	chr2:11299993-11300043	GM06990	blood:	n/a
33	chr2:11299993-11300043	HRE	kidney:	n/a
34	chr2:11299993-11300043	HEEpiC	esophagus:	n/a
35	chr2:11299993-11300043	HCT-116	colon:	n/a
36	chr2:11299993-11300043	HCF	heart:	n/a
37	chr2:11299993-11300043	GM19239	blood:	n/a
38	chr2:11299993-11300043	U87	brain:	n/a
39	chr2:11299993-11300043	AG10803	skin:	n/a
40	chr2:11299993-11300043	MCF10A-Er-Src	breast:	n/a
41	chr2:11299993-11300043	HAEpiC	amniotic membrane:	n/a
42	chr2:11299993-11300043	K562	blood:	n/a
43	chr2:11299993-11300043	BE2_C	brain:	n/a
44	chr2:11299993-11300043	RPTEC	kidney:	n/a
45	chr2:11299993-11300043	LNCaP	prostate:	n/a
46	chr2:11299993-11300043	ovcar-3	ovarian:	n/a
47	chr2:11299993-11300043	HUVEC	blood vessel:	n/a
48	chr2:11299993-11300043	T-47D	breast:	n/a
49	chr2:11299993-11300043	AG09309	skin:	n/a
50	chr2:11299993-11300043	HepG2	liver:	n/a

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:11281751..11284886-chr2:11297524..11300399,3	MCF-7	breast:
2	chr2:11294400..11297941-chr2:11298345..11302243,10	MCF-7	breast:

No data

Variant related genes	Relation type
PQLC3	CpG island
ENSG00000162976	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11683786	0.80[ASN][1000 genomes]
rs11891302	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11892387	0.99[ASN][1000 genomes]
rs12987119	0.80[ASN][1000 genomes]
rs13027444	0.99[ASN][1000 genomes]
rs2037107	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2271622	0.87[ASN][1000 genomes]
rs4668715	0.97[ASN][1000 genomes]
rs4668716	0.97[ASN][1000 genomes]
rs4668717	0.81[ASN][1000 genomes]
rs4668718	0.81[ASN][1000 genomes]
rs4669697	0.81[ASN][1000 genomes]
rs7556705	0.87[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	nsv520789	chr2:11259067-11312224	Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:11296200-11329400	Weak transcription	Gastric	stomach
2	chr2:11296200-11412600	Weak transcription	Aorta	Aorta
3	chr2:11296400-11301000	Weak transcription	GM12878-XiMat	blood
4	chr2:11296400-11303600	Weak transcription	HSMMtube	muscle
5	chr2:11296400-11306400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr2:11296400-11307200	Weak transcription	Thymus	Thymus
7	chr2:11296400-11308600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr2:11296400-11309600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr2:11296400-11314200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr2:11296400-11314800	Weak transcription	Primary hematopoietic stem cells	blood
11	chr2:11296400-11315200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr2:11296400-11315200	Weak transcription	Brain Substantia Nigra	brain
13	chr2:11296400-11315400	Weak transcription	Brain Angular Gyrus	brain
14	chr2:11296400-11318800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr2:11296600-11300200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr2:11296600-11300600	Weak transcription	Fetal Intestine Small	intestine
17	chr2:11296600-11301000	Weak transcription	Fetal Thymus	thymus
18	chr2:11296600-11301800	Weak transcription	Primary T cells from cord blood	blood
19	chr2:11296600-11303600	Weak transcription	Rectal Smooth Muscle	rectum
20	chr2:11296600-11304000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr2:11296600-11306200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr2:11296600-11315200	Weak transcription	Brain Cingulate Gyrus	brain
23	chr2:11296600-11315200	Weak transcription	Brain Hippocampus Middle	brain
24	chr2:11296600-11315200	Weak transcription	NHDF-Ad	bronchial
25	chr2:11296600-11319200	Weak transcription	Fetal Lung	lung
26	chr2:11296800-11300800	Weak transcription	Primary B cells from cord blood	blood
27	chr2:11296800-11303600	Weak transcription	Left Ventricle	heart
28	chr2:11296800-11303800	Weak transcription	Colon Smooth Muscle	Colon
29	chr2:11296800-11304200	Weak transcription	Esophagus	oesophagus
30	chr2:11296800-11307800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr2:11296800-11308000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr2:11296800-11309200	Weak transcription	Ovary	ovary
33	chr2:11296800-11315000	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr2:11296800-11315200	Weak transcription	Brain Anterior Caudate	brain
35	chr2:11296800-11318200	Weak transcription	A549	lung
36	chr2:11296800-11379800	Weak transcription	Small Intestine	intestine
37	chr2:11297000-11300800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr2:11297000-11300800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr2:11297000-11301600	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr2:11297000-11303600	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr2:11297000-11303800	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr2:11297000-11305200	Weak transcription	Colonic Mucosa	Colon
43	chr2:11297000-11305800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr2:11297200-11300600	Weak transcription	Primary B cells from peripheral blood	blood
45	chr2:11297200-11300800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr2:11297200-11300800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr2:11297200-11301000	Weak transcription	Adipose Nuclei	Adipose
48	chr2:11297200-11301000	Weak transcription	Stomach Smooth Muscle	stomach
49	chr2:11297200-11303600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr2:11297400-11300600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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