Variant report

Variant	rs6906364
Chromosome Location	chr6:30290375-30290376
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:23)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:23 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	E2F6	chr6:30289738-30290509	H1-hESC	embryonic stem cell:	n/a	n/a
2	YY1	chr6:30289999-30290543	H1-hESC	embryonic stem cell:	n/a	n/a
3	EP300	chr6:30290310-30290612	K562	blood:	n/a	n/a
4	JUND	chr6:30290341-30290677	K562	blood:	n/a	n/a
5	MAX	chr6:30290213-30290649	K562	blood:	n/a	n/a
6	POLR2A	chr6:30290151-30290675	K562	blood:	n/a	n/a
7	EGR1	chr6:30290229-30290607	K562	blood:	n/a	n/a
8	ELF1	chr6:30290334-30290646	K562	blood:	n/a	n/a
9	POLR2A	chr6:30290183-30290541	H1-hESC	embryonic stem cell:	n/a	n/a
10	MAX	chr6:30290274-30290433	K562	blood:	n/a	n/a
11	RCOR1	chr6:30290339-30290578	K562	blood:	n/a	n/a
12	EGR1	chr6:30290281-30290578	K562	blood:	n/a	n/a
13	POLR2A	chr6:30290338-30290421	K562	blood:	n/a	n/a
14	TAF1	chr6:30290146-30290450	H1-hESC	embryonic stem cell:	n/a	n/a
15	TBP	chr6:30290372-30290440	H1-hESC	embryonic stem cell:	n/a	n/a
16	NFYB	chr6:30290311-30290629	K562	blood:	n/a	n/a
17	JUN	chr6:30290266-30290605	K562	blood:	n/a	n/a
18	NFYB	chr6:30290314-30290621	GM12878	blood:	n/a	n/a
19	CHD2	chr6:30290365-30290402	H1-hESC	embryonic stem cell:	n/a	n/a
20	POLR2A	chr6:30289417-30290673	H1-hESC	embryonic stem cell:	n/a	n/a
21	MAZ	chr6:30290356-30290588	K562	blood:	n/a	n/a
22	POLR2A	chr6:30290116-30290664	K562	blood:	n/a	n/a
23	CBX3	chr6:30290128-30290683	K562	blood:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:30238145..30240956-chr6:30290362..30292756,2	MCF-7	breast:
2	chr6:30289552..30291696-chr6:30311797..30314198,2	MCF-7	breast:
3	chr6:30285811..30291810-chr6:30292950..30295041,8	MCF-7	breast:
4	chr6:30280311..30284276-chr6:30285910..30291583,5	MCF-7	breast:

No data

Variant related genes	Relation type
TRIM39	TF binding region
ENSG00000241370	Chromatin interaction
ENSG00000204599	Chromatin interaction
ENSG00000231074	Chromatin interaction
ENSG00000270604	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1579220	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2158287	0.84[EUR][1000 genomes]
rs2508028	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2516698	0.89[EUR][1000 genomes]
rs61758102	1.00[ASN][1000 genomes]
rs6911349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6924952	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468691	1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6906364	HCG18	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30256200-30292000	Weak transcription	Fetal Heart	heart
2	chr6:30257600-30292800	Weak transcription	Fetal Kidney	kidney
3	chr6:30262600-30292400	Weak transcription	Pancreas	Pancrea
4	chr6:30263000-30293000	Weak transcription	Brain Substantia Nigra	brain
5	chr6:30270600-30292600	Weak transcription	Esophagus	oesophagus
6	chr6:30270800-30292200	Weak transcription	NHDF-Ad	bronchial
7	chr6:30271000-30292400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:30271000-30292800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr6:30271400-30291400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:30272200-30292200	Weak transcription	Fetal Brain Male	brain
11	chr6:30274600-30292200	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr6:30274600-30292600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr6:30275400-30293400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:30278200-30292400	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr6:30280000-30290400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr6:30280400-30292800	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr6:30280800-30292000	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr6:30281200-30292200	Weak transcription	Fetal Brain Female	brain
19	chr6:30281800-30292000	Weak transcription	Brain Hippocampus Middle	brain
20	chr6:30281800-30292600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr6:30282000-30292000	Weak transcription	Fetal Lung	lung
22	chr6:30282000-30292400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr6:30282200-30291000	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr6:30282200-30292200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:30282200-30292400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr6:30282200-30292400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr6:30282200-30292600	Weak transcription	Right Ventricle	heart
28	chr6:30282200-30292800	Weak transcription	Brain Anterior Caudate	brain
29	chr6:30282200-30292800	Weak transcription	Brain Cingulate Gyrus	brain
30	chr6:30282200-30292800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr6:30282400-30291000	Weak transcription	Brain Germinal Matrix	brain
32	chr6:30282600-30292400	Weak transcription	Psoas Muscle	Psoas
33	chr6:30284200-30292400	Weak transcription	Colonic Mucosa	Colon
34	chr6:30284400-30293000	Weak transcription	Aorta	Aorta
35	chr6:30284600-30292400	Weak transcription	Fetal Muscle Trunk	muscle
36	chr6:30284600-30292800	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr6:30284600-30292800	Weak transcription	Stomach Smooth Muscle	stomach
38	chr6:30284800-30292000	Weak transcription	Duodenum Mucosa	Duodenum
39	chr6:30285200-30292800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr6:30285200-30293000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
41	chr6:30285200-30293000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
42	chr6:30285400-30292800	Enhancers	Primary T helper naive cells from peripheral blood	blood
43	chr6:30286000-30290400	Weak transcription	Colon Smooth Muscle	Colon
44	chr6:30286000-30292800	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr6:30286400-30291600	Weak transcription	Fetal Intestine Large	intestine
46	chr6:30286400-30292200	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr6:30286800-30292400	Weak transcription	Lung	lung
48	chr6:30287200-30292400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr6:30287200-30292400	Weak transcription	Primary hematopoietic stem cells	blood
50	chr6:30287200-30292600	Weak transcription	Fetal Muscle Leg	muscle

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