Variant report

Variant	rs6824340
Chromosome Location	chr4:85853402-85853403
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10516732	1.00[EUR][1000 genomes]
rs16995930	0.80[LWK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs17009362	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4569747	1.00[EUR][1000 genomes]
rs58296528	1.00[EUR][1000 genomes]
rs58516106	1.00[AMR][1000 genomes]
rs6824288	1.00[EUR][1000 genomes]
rs72965167	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1829655	chr4:85577491-86292692	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv427684	chr4:85668487-85863446	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv508295	chr4:85822802-85885027	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85798800-85873200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr4:85809000-85872800	Weak transcription	A549	lung
3	chr4:85813000-85858800	Weak transcription	Duodenum Mucosa	Duodenum
4	chr4:85821600-85858400	Weak transcription	Pancreas	Pancrea
5	chr4:85829200-85866200	Weak transcription	Spleen	Spleen
6	chr4:85837600-85858400	Weak transcription	Fetal Brain Female	brain
7	chr4:85837600-85859200	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr4:85837800-85858000	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr4:85838400-85853800	Weak transcription	Fetal Heart	heart
10	chr4:85838600-85858600	Weak transcription	Liver	Liver
11	chr4:85838600-85858600	Weak transcription	Psoas Muscle	Psoas
12	chr4:85839600-85858400	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr4:85842200-85857800	Weak transcription	Colon Smooth Muscle	Colon
14	chr4:85842400-85858400	Weak transcription	HMEC	breast
15	chr4:85842800-85858000	Weak transcription	HUVEC	blood vessel
16	chr4:85844400-85854400	Weak transcription	HepG2	liver
17	chr4:85844600-85854000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr4:85845600-85882800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr4:85846400-85858400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr4:85846600-85858200	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr4:85847000-85860200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr4:85848400-85853600	Strong transcription	Primary monocytes fromperipheralblood	blood
23	chr4:85848400-85853600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr4:85848400-85857800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr4:85848600-85853600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr4:85848800-85858400	Weak transcription	Small Intestine	intestine
27	chr4:85849200-85876000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr4:85849400-85859400	Weak transcription	Fetal Brain Male	brain
29	chr4:85849600-85857400	Weak transcription	Gastric	stomach
30	chr4:85849600-85859000	Weak transcription	Lung	lung
31	chr4:85849600-85869600	Weak transcription	Aorta	Aorta
32	chr4:85850400-85854000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr4:85850400-85854800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr4:85850400-85857400	Weak transcription	Right Ventricle	heart
35	chr4:85850400-85859200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr4:85850600-85857400	Weak transcription	Ovary	ovary
37	chr4:85850600-85858000	Weak transcription	HSMMtube	muscle
38	chr4:85850600-85858400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr4:85851200-85876000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr4:85851400-85854400	Weak transcription	Fetal Muscle Trunk	muscle
41	chr4:85851400-85859000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr4:85851400-85864200	Weak transcription	Fetal Intestine Small	intestine
43	chr4:85851800-85854200	Weak transcription	Fetal Stomach	stomach
44	chr4:85851800-85858600	Weak transcription	NH-A	brain
45	chr4:85851800-85859000	Weak transcription	NHLF	lung
46	chr4:85851800-85860200	Weak transcription	Fetal Kidney	kidney
47	chr4:85852000-85858000	Weak transcription	Stomach Smooth Muscle	stomach
48	chr4:85852000-85864000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr4:85852200-85854200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr4:85852400-85853600	Enhancers	Brain Cingulate Gyrus	brain

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