Variant report

Variant	rs9450784
Chromosome Location	chr6:88440035-88440036
allele	C/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:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:88439163..88441928-chr6:88508734..88511728,2	MCF-7	breast:
2	chr6:88432657..88435151-chr6:88437657..88440381,2	K562	blood:
3	chr6:88436022..88438583-chr6:88439057..88441989,2	MCF-7	breast:
4	chr6:88406148..88413760-chr6:88438581..88445163,10	K562	blood:
5	chr6:88409618..88413865-chr6:88438643..88442026,5	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ORC3-3	chr6:88438474-88441973	predAs_engstrom06_CN262270_1

No data

Variant related genes	Relation type
ENSG00000135334	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs28381490	1.00[AMR][1000 genomes]
rs28381497	1.00[AMR][1000 genomes]
rs28381506	1.00[AMR][1000 genomes]
rs29001625	1.00[AMR][1000 genomes]
rs9444523	1.00[EUR][1000 genomes]
rs9444545	1.00[EUR][1000 genomes]
rs9444546	1.00[EUR][1000 genomes]
rs9444547	1.00[EUR][1000 genomes]
rs9444548	1.00[EUR][1000 genomes]
rs9450789	1.00[EUR][1000 genomes]
rs9450791	1.00[EUR][1000 genomes]
rs9450797	1.00[EUR][1000 genomes]
rs9450798	1.00[EUR][1000 genomes]
rs9450799	1.00[EUR][1000 genomes]
rs9450803	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758068	chr6:88358988-88441473	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv2759454	chr6:88358988-88441473	Strong transcription Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:88433400-88440400	Weak transcription	Duodenum Mucosa	Duodenum
2	chr6:88433400-88441200	Weak transcription	Pancreas	Pancrea
3	chr6:88433800-88440400	Weak transcription	HSMM	muscle
4	chr6:88433800-88441200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr6:88433800-88441400	Weak transcription	Brain Substantia Nigra	brain
6	chr6:88433800-88441400	Weak transcription	HSMMtube	muscle
7	chr6:88433800-88441600	Weak transcription	NHLF	lung
8	chr6:88433800-88441800	Weak transcription	Brain Angular Gyrus	brain
9	chr6:88434800-88441400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr6:88435200-88440400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:88435400-88441400	Weak transcription	Adipose Nuclei	Adipose
12	chr6:88435600-88440200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr6:88435600-88440200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr6:88435600-88440400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr6:88435600-88441000	Weak transcription	Primary T cells fromperipheralblood	blood
16	chr6:88435600-88441200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:88435600-88441400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr6:88435800-88440200	Weak transcription	Primary hematopoietic stem cells	blood
19	chr6:88435800-88440200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr6:88436000-88440200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr6:88436000-88440200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr6:88436400-88440200	Weak transcription	Primary B cells from peripheral blood	blood
23	chr6:88437000-88440400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr6:88437200-88440200	Enhancers	NHEK	skin
25	chr6:88437200-88441200	Enhancers	HMEC	breast
26	chr6:88437400-88440200	Enhancers	A549	lung
27	chr6:88437400-88440400	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr6:88437400-88441800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr6:88437600-88440400	Enhancers	Primary neutrophils fromperipheralblood	blood
30	chr6:88438000-88441600	Enhancers	Rectal Mucosa Donor 29	rectum
31	chr6:88438200-88444200	Enhancers	Primary monocytes fromperipheralblood	blood
32	chr6:88438400-88440400	Weak transcription	Placenta	Placenta
33	chr6:88438600-88441800	Enhancers	Primary hematopoietic stem cells short term culture	blood
34	chr6:88438600-88442800	Enhancers	Rectal Mucosa Donor 31	rectum
35	chr6:88438600-88443400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr6:88438800-88440200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr6:88438800-88440200	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr6:88438800-88441400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr6:88438800-88441400	Weak transcription	K562	blood
40	chr6:88438800-88441400	Weak transcription	NHDF-Ad	bronchial
41	chr6:88439000-88440600	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr6:88439000-88441400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr6:88439200-88441400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr6:88439200-88442400	Enhancers	Sigmoid Colon	Sigmoid Colon
45	chr6:88439200-88442600	Enhancers	Fetal Thymus	thymus
46	chr6:88439400-88441400	Enhancers	Hela-S3	cervix
47	chr6:88439400-88441800	Enhancers	Spleen	Spleen
48	chr6:88439600-88440400	Weak transcription	Right Ventricle	heart
49	chr6:88439600-88440800	Flanking Active TSS	GM12878-XiMat	blood
50	chr6:88439600-88441800	Enhancers	Primary B cells from cord blood	blood

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