Variant report

Variant	rs941437
Chromosome Location	chr6:24496828-24496829
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:24496571-24496875	HepG2	liver:	n/a	n/a

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:24473016..24474847-chr6:24495882..24498664,2	K562	blood:
2	chr6:24487824..24490266-chr6:24492770..24497111,3	MCF-7	breast:
3	chr6:24488265..24492557-chr6:24493494..24498787,7	K562	blood:
4	chr6:24401784..24404907-chr6:24494976..24497958,4	MCF-7	breast:
5	chr6:24494955..24497307-chr6:24719219..24721474,2	MCF-7	breast:
6	chr6:24483355..24485478-chr6:24495554..24497195,2	MCF-7	breast:
7	chr6:24495596..24498223-chr6:24565020..24567302,2	MCF-7	breast:
8	chr6:24495638..24500234-chr6:24504925..24509115,5	K562	blood:

No data

Variant related genes	Relation type
GPLD1	TF binding region
ENSG00000112308	Chromatin interaction
ENSG00000124532	Chromatin interaction
ENSG00000112293	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs2010190	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2744551	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2744554	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2744555	0.83[ASN][1000 genomes]
rs2744572	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2744582	0.90[ASN][1000 genomes]
rs2744588	0.87[ASN][1000 genomes]
rs2760137	0.87[ASN][1000 genomes]
rs2760146	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2760153	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2793445	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2817204	0.92[ASN][1000 genomes]
rs2817215	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2817217	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2817218	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2817226	0.87[ASN][1000 genomes]
rs2817227	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2817231	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2817247	0.88[ASN][1000 genomes]
rs2817248	0.83[EUR][1000 genomes];0.85[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	esv2763542	chr6:24445131-24520637	Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv519552	chr6:24451256-24524704	Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv883480	chr6:24481299-24507519	Bivalent/Poised TSS Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
4	esv34020	chr6:24481299-24606036	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv3351586	chr6:24494123-24497171	Bivalent/Poised TSS Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24495800-24517800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr6:24496000-24501600	Weak transcription	A549	lung
3	chr6:24496000-24513000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:24496000-24517800	Weak transcription	Spleen	Spleen
5	chr6:24496000-24534200	Weak transcription	Gastric	stomach
6	chr6:24496000-24538000	Weak transcription	Esophagus	oesophagus
7	chr6:24496200-24497000	Enhancers	Brain Hippocampus Middle	brain
8	chr6:24496200-24497200	Weak transcription	Fetal Muscle Trunk	muscle
9	chr6:24496200-24498200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr6:24496200-24502200	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr6:24496200-24502400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr6:24496200-24503000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr6:24496200-24503400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr6:24496200-24503600	Weak transcription	Aorta	Aorta
15	chr6:24496200-24503600	Weak transcription	Ovary	ovary
16	chr6:24496200-24503600	Weak transcription	Pancreas	Pancrea
17	chr6:24496200-24503800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr6:24496200-24503800	Weak transcription	Fetal Brain Female	brain
19	chr6:24496200-24504000	Weak transcription	Fetal Lung	lung
20	chr6:24496200-24505000	Weak transcription	Right Ventricle	heart
21	chr6:24496200-24506200	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr6:24496200-24526400	Weak transcription	Right Atrium	heart
23	chr6:24496200-24527800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr6:24496200-24534200	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr6:24496200-24535000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr6:24496200-24536200	Weak transcription	Psoas Muscle	Psoas
27	chr6:24496200-24583000	Weak transcription	Hela-S3	cervix
28	chr6:24496400-24497000	Weak transcription	Fetal Stomach	stomach
29	chr6:24496400-24497400	ZNF genes & repeats	K562	blood
30	chr6:24496400-24497600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr6:24496400-24497800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr6:24496400-24503400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:24496400-24503400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr6:24496400-24503600	Weak transcription	Fetal Kidney	kidney
35	chr6:24496400-24503800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr6:24496400-24517200	Weak transcription	Colon Smooth Muscle	Colon
37	chr6:24496400-24532200	Weak transcription	Brain Germinal Matrix	brain
38	chr6:24496600-24497000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr6:24496600-24497000	Weak transcription	Thymus	Thymus
40	chr6:24496600-24497200	Strong transcription	Primary B cells from cord blood	blood
41	chr6:24496600-24497400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr6:24496600-24498400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr6:24496600-24498600	Strong transcription	Fetal Thymus	thymus
44	chr6:24496600-24502400	Weak transcription	Fetal Intestine Large	intestine
45	chr6:24496600-24502800	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr6:24496600-24503200	Weak transcription	Stomach Smooth Muscle	stomach
47	chr6:24496600-24503600	Weak transcription	Brain Anterior Caudate	brain
48	chr6:24496600-24503600	Weak transcription	Left Ventricle	heart
49	chr6:24496600-24504000	Weak transcription	Brain Cingulate Gyrus	brain
50	chr6:24496600-24505000	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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