Variant report

Variant	rs55740648
Chromosome Location	chr4:7815069-7815070
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs11721583	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11721609	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11724632	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11728778	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11729332	0.81[EUR][1000 genomes]
rs11731942	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11733311	0.80[EUR][1000 genomes]
rs11734860	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13113113	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13117918	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13125295	0.87[EUR][1000 genomes]
rs13132939	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34250310	0.87[EUR][1000 genomes]
rs34352176	0.81[EUR][1000 genomes]
rs34949259	0.87[EUR][1000 genomes]
rs35041036	0.87[EUR][1000 genomes]
rs35161247	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35509185	0.86[EUR][1000 genomes]
rs35515779	0.83[EUR][1000 genomes]
rs35592594	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35617438	0.86[EUR][1000 genomes]
rs35870249	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35889107	0.83[EUR][1000 genomes]
rs3934645	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs41264705	0.83[EUR][1000 genomes]
rs4443284	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4594724	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55698135	0.83[EUR][1000 genomes]
rs56270003	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58457272	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61036795	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62289276	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62289280	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62291983	0.81[EUR][1000 genomes]
rs62291984	0.81[EUR][1000 genomes]
rs885260	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs885261	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878570	chr4:7534603-7836835	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv491712	chr4:7582506-8155069	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv1007319	chr4:7705550-7832097	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv537018	chr4:7705550-7832097	Genic enhancers Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	esv34140	chr4:7787936-8172491	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:7770800-7828400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr4:7784000-7821200	Weak transcription	Small Intestine	intestine
3	chr4:7787000-7829400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr4:7791000-7829400	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr4:7800600-7828800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr4:7802200-7819800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr4:7804000-7829200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr4:7805200-7822600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr4:7805600-7816400	Genic enhancers	Fetal Stomach	stomach
10	chr4:7806200-7819200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr4:7806400-7824600	Weak transcription	Fetal Thymus	thymus
12	chr4:7807800-7817800	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr4:7808000-7823000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr4:7808600-7830000	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr4:7808800-7818400	Weak transcription	Psoas Muscle	Psoas
16	chr4:7809200-7816600	Weak transcription	Fetal Brain Male	brain
17	chr4:7809400-7815200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr4:7809600-7815600	Weak transcription	Brain Anterior Caudate	brain
19	chr4:7809600-7819000	Genic enhancers	A549	lung
20	chr4:7809600-7822400	Weak transcription	Brain Substantia Nigra	brain
21	chr4:7809600-7823000	Weak transcription	Brain Angular Gyrus	brain
22	chr4:7809600-7828000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr4:7809800-7820000	Weak transcription	Brain Hippocampus Middle	brain
24	chr4:7809800-7823400	Weak transcription	Brain Cingulate Gyrus	brain
25	chr4:7809800-7823400	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr4:7810000-7815400	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr4:7810000-7816200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr4:7810000-7816200	Weak transcription	Aorta	Aorta
29	chr4:7810000-7823400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr4:7810200-7821000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr4:7810600-7816200	Weak transcription	Left Ventricle	heart
32	chr4:7810800-7816200	Weak transcription	Duodenum Mucosa	Duodenum
33	chr4:7811200-7817400	Strong transcription	Cortex derived primary cultured neurospheres	brain
34	chr4:7811400-7816000	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr4:7811400-7819600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr4:7811600-7816400	Weak transcription	Primary T helper cells PMA-I stimulated	--
37	chr4:7811800-7816200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr4:7812200-7816400	Enhancers	Fetal Heart	heart
39	chr4:7812400-7815600	Enhancers	Ovary	ovary
40	chr4:7812800-7815200	Weak transcription	HepG2	liver
41	chr4:7812800-7816000	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr4:7812800-7822200	Genic enhancers	NH-A	brain
43	chr4:7813000-7815400	Weak transcription	Brain Germinal Matrix	brain
44	chr4:7813200-7816200	Weak transcription	Fetal Brain Female	brain
45	chr4:7813400-7816200	Weak transcription	Lung	lung
46	chr4:7813400-7819800	Weak transcription	Right Atrium	heart
47	chr4:7813400-7825200	Weak transcription	Right Ventricle	heart
48	chr4:7813400-7829800	Weak transcription	Spleen	Spleen
49	chr4:7813600-7815200	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr4:7814000-7815200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--

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