Variant report

Variant	rs1006081
Chromosome Location	chr6:109625550-109625551
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:104)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:104 , 50 per page) page: 1 2 3

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EGR1	chr6:109625503-109626019	K562	blood:	n/a	n/a
2	NR2F2	chr6:109625062-109626138	K562	blood:	n/a	n/a
3	MYC	chr6:109624828-109626301	K562	blood:	n/a	n/a
4	HMGN3	chr6:109625169-109626147	K562	blood:	n/a	n/a
5	SPI1	chr6:109625326-109626234	GM12878	blood:	n/a	n/a
6	BATF	chr6:109625525-109625958	GM12878	blood:	n/a	n/a
7	RUNX3	chr6:109625501-109626052	GM12878	blood:	n/a	n/a
8	SIN3AK20	chr6:109624913-109625817	MCF-7	breast:	n/a	n/a
9	UBTF	chr6:109625469-109625731	K562	blood:	n/a	n/a
10	MAFF	chr6:109625204-109626105	K562	blood:	n/a	n/a
11	EP300	chr6:109624869-109626613	K562	blood:	n/a	chr6:109624963-109624973
12	STAT2	chr6:109625311-109626090	K562	blood:	n/a	chr6:109625783-109625798
13	STAT5A	chr6:109625381-109626313	K562	blood:	n/a	n/a
14	CREB1	chr6:109625283-109626208	K562	blood:	n/a	n/a
15	CTCF	chr6:109625501-109626140	K562	blood:	n/a	n/a
16	NFIC	chr6:109625472-109625968	GM12878	blood:	n/a	n/a
17	ELF1	chr6:109625423-109626221	K562	blood:	n/a	n/a
18	MYC	chr6:109624868-109626229	K562	blood:	n/a	n/a
19	PML	chr6:109625114-109626211	K562	blood:	n/a	n/a
20	JUND	chr6:109624960-109626258	K562	blood:	n/a	n/a
21	BACH1	chr6:109625548-109626037	K562	blood:	n/a	n/a
22	GATA2	chr6:109625161-109626144	K562	blood:	n/a	chr6:109625249-109625265 chr6:109625251-109625258
23	CEBPD	chr6:109625422-109626203	K562	blood:	n/a	n/a
24	SPI1	chr6:109625538-109626031	GM12891	blood:	n/a	n/a
25	GATA3	chr6:109624872-109625799	MCF-7	breast:	n/a	chr6:109625249-109625265 chr6:109625251-109625258
26	TRIM28	chr6:109625266-109626078	K562	blood:	n/a	n/a
27	MYC	chr6:109624986-109626259	K562	blood:	n/a	n/a
28	TRIM28	chr6:109624749-109626180	K562	blood:	n/a	n/a
29	NR3C1	chr6:109625534-109625813	A549	lung:	n/a	n/a
30	GATA3	chr6:109625182-109625721	MCF-7	breast:	n/a	chr6:109625249-109625265 chr6:109625251-109625258
31	MAFK	chr6:109625233-109626082	K562	blood:	n/a	n/a
32	CHD2	chr6:109625065-109626025	K562	blood:	n/a	n/a
33	RCOR1	chr6:109624924-109626269	K562	blood:	n/a	n/a
34	GABPA	chr6:109625422-109626073	K562	blood:	n/a	n/a
35	USF1	chr6:109625457-109626147	K562	blood:	n/a	n/a
36	JUN	chr6:109625148-109626221	K562	blood:	n/a	n/a
37	TAL1	chr6:109625149-109626289	K562	blood:	n/a	n/a
38	BHLHE40	chr6:109625057-109626198	K562	blood:	n/a	n/a
39	ZNF274	chr6:109625202-109626061	K562	blood:	n/a	n/a
40	EP300	chr6:109625286-109626247	K562	blood:	n/a	n/a
41	GATA2	chr6:109625142-109626131	K562	blood:	n/a	chr6:109625249-109625265 chr6:109625251-109625258
42	REST	chr6:109625439-109626160	K562	blood:	n/a	n/a
43	USF1	chr6:109625349-109626186	K562	blood:	n/a	n/a
44	MEF2A	chr6:109625246-109626110	K562	blood:	n/a	n/a
45	CCNT2	chr6:109624959-109626164	K562	blood:	n/a	n/a
46	POLR2A	chr6:109625029-109626263	K562	blood:	n/a	n/a
47	HCFC1	chr6:109624970-109626203	K562	blood:	n/a	n/a
48	POLR2A	chr6:109625458-109626068	K562	blood:	n/a	n/a
49	CEBPB	chr6:109625511-109626011	K562	blood:	n/a	n/a
50	IRF1	chr6:109625214-109626088	K562	blood:	n/a	chr6:109625779-109625800

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:109623091..109628183-chr6:109700606..109706462,9	K562	blood:
2	chr6:109555640..109560553-chr6:109624000..109628580,4	K562	blood:
3	chr6:109622184..109625668-chr6:109702158..109705094,3	MCF-7	breast:
4	chr6:109625539..109627045-chr6:109630480..109632036,2	K562	blood:
5	chr6:109624816..109627658-chr6:109659263..109661556,2	K562	blood:
6	chr6:109624351..109631970-chr6:109702157..109706422,11	K562	blood:

No data

Variant related genes	Relation type
ENSG00000201023	TF binding region
CCDC162P	TF binding region
ENSG00000260273	Chromatin interaction
ENSG00000203799	Chromatin interaction
ENSG00000243587	Chromatin interaction
ENSG00000135535	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11153164	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11153169	0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11759230	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11759269	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12191774	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12660449	0.84[CEU][hapmap];1.00[YRI][hapmap]
rs3941888	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4945826	0.82[ASW][hapmap];1.00[CEU][hapmap];0.86[GIH][hapmap];0.85[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4945829	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4946953	0.96[CEU][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4946954	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4946955	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4946956	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4946957	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4946959	0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4946960	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4946962	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57749539	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60248809	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6903519	0.82[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6903695	0.82[ASW][hapmap]
rs6927569	0.82[ASW][hapmap]
rs7755970	0.82[ASW][hapmap]
rs7757193	0.84[CEU][hapmap];1.00[YRI][hapmap]
rs7774390	1.00[ASW][hapmap]
rs884366	0.82[ASW][hapmap];1.00[CEU][hapmap];0.88[GIH][hapmap];0.85[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9320282	1.00[YRI][hapmap]
rs9374083	0.82[ASW][hapmap];0.91[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9386798	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9400274	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9487053	1.00[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527719	chr6:109624937-109631609	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1006081	CD164	cis	Muscle Skeletal	GTEx

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109619200-109625800	Weak transcription	Brain Angular Gyrus	brain
2	chr6:109619200-109626800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr6:109619400-109629200	Weak transcription	Gastric	stomach
4	chr6:109619400-109638000	Weak transcription	HepG2	liver
5	chr6:109619600-109625600	Weak transcription	Lung	lung
6	chr6:109619600-109626000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:109621400-109629600	Enhancers	Primary hematopoietic stem cells	blood
8	chr6:109621600-109625600	Weak transcription	Right Atrium	heart
9	chr6:109621600-109634000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr6:109622000-109625800	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr6:109622400-109626200	Enhancers	Placenta	Placenta
12	chr6:109623000-109625600	Weak transcription	Adipose Nuclei	Adipose
13	chr6:109623200-109625800	Weak transcription	Brain Hippocampus Middle	brain
14	chr6:109623600-109629400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr6:109624000-109627000	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr6:109624400-109626000	Enhancers	Hela-S3	cervix
17	chr6:109624400-109626400	Flanking Active TSS	K562	blood
18	chr6:109624400-109626600	Enhancers	Rectal Mucosa Donor 31	rectum
19	chr6:109624600-109625600	Enhancers	Aorta	Aorta
20	chr6:109624600-109626200	Enhancers	Sigmoid Colon	Sigmoid Colon
21	chr6:109624600-109626400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr6:109624600-109626400	Enhancers	Primary monocytes fromperipheralblood	blood
23	chr6:109624600-109626400	Enhancers	Pancreas	Pancrea
24	chr6:109624600-109626600	Enhancers	Fetal Intestine Large	intestine
25	chr6:109624600-109631000	Enhancers	Fetal Intestine Small	intestine
26	chr6:109624800-109625800	Enhancers	Fetal Muscle Leg	muscle
27	chr6:109624800-109626000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr6:109624800-109626200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
29	chr6:109624800-109626400	Enhancers	Stomach Mucosa	stomach
30	chr6:109624800-109627400	Enhancers	Primary B cells from peripheral blood	blood
31	chr6:109624800-109628200	Enhancers	Fetal Thymus	thymus
32	chr6:109624800-109629000	Enhancers	Duodenum Mucosa	Duodenum
33	chr6:109625000-109625600	Enhancers	ES-I3 Cell Line	embryonic stem cell
34	chr6:109625000-109625800	Enhancers	Small Intestine	intestine
35	chr6:109625000-109625800	Enhancers	NHDF-Ad	bronchial
36	chr6:109625000-109626200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr6:109625000-109626200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr6:109625000-109626200	Enhancers	Left Ventricle	heart
39	chr6:109625000-109626200	Enhancers	Right Ventricle	heart
40	chr6:109625000-109626400	Enhancers	Monocytes-CD14+_RO01746	blood
41	chr6:109625000-109627000	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:109625000-109627000	Enhancers	Brain Substantia Nigra	brain
43	chr6:109625000-109627000	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr6:109625000-109627400	Enhancers	Primary B cells from cord blood	blood
45	chr6:109625200-109625600	Enhancers	Placenta Amnion	Placenta Amnion
46	chr6:109625200-109625600	Weak transcription	Psoas Muscle	Psoas
47	chr6:109625200-109625800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr6:109625200-109625800	Flanking Active TSS	GM12878-XiMat	blood
49	chr6:109625200-109625800	Enhancers	HSMM	muscle
50	chr6:109625200-109626000	Enhancers	HUES6 Cell Line	embryonic stem cell

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