Variant report

Variant	rs61741706
Chromosome Location	chr6:24828449-24828450
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11961640	1.00[EUR][1000 genomes]
rs11962939	0.97[AFR][1000 genomes]
rs11962982	0.97[AFR][1000 genomes]
rs11963887	1.00[EUR][1000 genomes]
rs11967997	0.97[AFR][1000 genomes]
rs11968283	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11968286	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11968340	1.00[EUR][1000 genomes]
rs11969506	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35254980	0.97[AFR][1000 genomes]
rs35698586	0.97[AFR][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	nsv830609	chr6:24712086-24896647	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv508396	chr6:24779648-24846309	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	8 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	chr6:24777000-24847600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:24777000-24859600	Weak transcription	Psoas Muscle	Psoas
3	chr6:24788000-24832000	Weak transcription	Brain Substantia Nigra	brain
4	chr6:24788800-24848200	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr6:24789200-24842600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr6:24798200-24841200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr6:24800000-24843200	Weak transcription	Liver	Liver
8	chr6:24802600-24834200	Weak transcription	HSMM	muscle
9	chr6:24804800-24858200	Weak transcription	Gastric	stomach
10	chr6:24806200-24842400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr6:24808800-24845600	Weak transcription	Fetal Stomach	stomach
12	chr6:24809800-24839200	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr6:24810000-24831600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr6:24810000-24832600	Weak transcription	Brain Cingulate Gyrus	brain
15	chr6:24817800-24829600	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:24817800-24836000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr6:24817800-24839600	Strong transcription	Primary T cells from cord blood	blood
18	chr6:24817800-24840800	Strong transcription	Primary B cells from peripheral blood	blood
19	chr6:24817800-24854400	Strong transcription	Primary B cells from cord blood	blood
20	chr6:24817800-24855800	Strong transcription	Primary neutrophils fromperipheralblood	blood
21	chr6:24818000-24836200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr6:24818000-24840000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr6:24818000-24840600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr6:24818000-24840600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr6:24818600-24855800	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr6:24818800-24856000	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr6:24818800-24856400	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr6:24821400-24834400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr6:24821400-24836000	Strong transcription	Primary hematopoietic stem cells	blood
30	chr6:24822400-24840200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr6:24822600-24844000	Weak transcription	Fetal Heart	heart
32	chr6:24823000-24833400	Strong transcription	Skeletal Muscle Male	skeletal muscle
33	chr6:24823000-24835200	Strong transcription	Skeletal Muscle Female	skeletal muscle
34	chr6:24823400-24828800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr6:24824800-24831400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr6:24825200-24831600	Weak transcription	NHDF-Ad	bronchial
37	chr6:24825400-24828600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr6:24825400-24828800	Enhancers	HMEC	breast
39	chr6:24825600-24831400	Weak transcription	Adipose Nuclei	Adipose
40	chr6:24825600-24834800	Weak transcription	Esophagus	oesophagus
41	chr6:24826000-24831200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr6:24826200-24829200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr6:24826600-24833400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:24827200-24828600	Strong transcription	Placenta Amnion	Placenta Amnion
45	chr6:24827200-24828800	Strong transcription	Fetal Muscle Trunk	muscle
46	chr6:24827200-24833000	Strong transcription	Placenta	Placenta
47	chr6:24827200-24834000	Strong transcription	Primary T helper cells PMA-I stimulated	--
48	chr6:24827400-24828600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr6:24827400-24828600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
50	chr6:24827400-24828800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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