Variant report

Variant	rs6812249
Chromosome Location	chr4:153025845-153025846
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM160A1-6	chr4:153024779-153025872	ENSG00000245954

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs4466023	0.93[AMR][1000 genomes]
rs4619874	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6811845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6811999	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6842023	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72734255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72734257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72734263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72734266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72734273	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72734277	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72734278	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72734280	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72734282	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72734285	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72734288	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72734291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72734292	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72734294	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72734295	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72734298	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72734299	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72734302	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72736205	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72736206	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72736213	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72736216	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72736218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72736224	1.00[AMR][1000 genomes]
rs7682988	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[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	nsv880341	chr4:152861685-153110256	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv931416	chr4:152877808-153440553	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:153017200-153027000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr4:153021200-153029400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
3	chr4:153021400-153026200	Enhancers	Spleen	Spleen
4	chr4:153022000-153027000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr4:153022000-153027200	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr4:153022200-153026200	Weak transcription	Hela-S3	cervix
7	chr4:153022400-153027000	Weak transcription	Left Ventricle	heart
8	chr4:153022400-153027000	Weak transcription	HUVEC	blood vessel
9	chr4:153022400-153027200	Weak transcription	Duodenum Mucosa	Duodenum
10	chr4:153022400-153027200	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr4:153022400-153027400	Weak transcription	Rectal Smooth Muscle	rectum
12	chr4:153022400-153027600	Weak transcription	Brain Cingulate Gyrus	brain
13	chr4:153022400-153027600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr4:153022400-153029400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr4:153022600-153026000	Weak transcription	Colon Smooth Muscle	Colon
16	chr4:153022600-153026400	Enhancers	Fetal Brain Male	brain
17	chr4:153022600-153027600	Enhancers	A549	lung
18	chr4:153022800-153027200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr4:153022800-153027400	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr4:153022800-153028400	Weak transcription	Brain Hippocampus Middle	brain
21	chr4:153023000-153026200	Weak transcription	Adipose Nuclei	Adipose
22	chr4:153023000-153027600	Weak transcription	Brain Angular Gyrus	brain
23	chr4:153023200-153027200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr4:153023600-153026000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr4:153023600-153027800	Weak transcription	Brain Substantia Nigra	brain
26	chr4:153023800-153026200	Weak transcription	Fetal Lung	lung
27	chr4:153023800-153027000	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr4:153023800-153027000	Weak transcription	Osteobl	bone
29	chr4:153023800-153027200	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr4:153023800-153027200	Weak transcription	HSMMtube	muscle
31	chr4:153023800-153027800	Weak transcription	Esophagus	oesophagus
32	chr4:153023800-153040000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr4:153024000-153026000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr4:153024000-153026000	Weak transcription	NHDF-Ad	bronchial
35	chr4:153024000-153026200	Weak transcription	Stomach Smooth Muscle	stomach
36	chr4:153024000-153026600	Enhancers	Fetal Kidney	kidney
37	chr4:153024000-153027000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr4:153024000-153027000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr4:153024000-153027000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr4:153024000-153027000	Weak transcription	HMEC	breast
41	chr4:153024000-153027200	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr4:153024000-153027600	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr4:153024000-153027600	Weak transcription	Gastric	stomach
44	chr4:153024200-153026000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr4:153024200-153027000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr4:153024200-153027000	Weak transcription	NH-A	brain
47	chr4:153024200-153027800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr4:153024200-153031400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
49	chr4:153024200-153032600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
50	chr4:153024400-153026200	Weak transcription	NHLF	lung

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