Variant report

Variant	rs7747772
Chromosome Location	chr6:28090662-28090663
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:6)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:28090547-28090680	MCF10A-Er-Src	breast:	n/a	n/a
2	GATA1	chr6:28089841-28090982	PBDE	blood:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:27858930..27860939-chr6:28090408..28092869,2	MCF-7	breast:
2	chr6:27860877..27862510-chr6:28089122..28091622,2	K562	blood:
3	chr6:28089193..28090739-chr6:28092491..28094959,2	MCF-7	breast:
4	chr6:28089455..28091292-chr6:28191651..28194419,2	MCF-7	breast:
5	chr6:27803895..27805819-chr6:28090155..28092205,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZKSCAN4-1	chr6:28089573-28090989	ENSG00000224024
2	lnc-ZKSCAN4-1	chr6:28089595-28090989	ENSG00000224024
3	lnc-ZKSCAN4-1	chr6:28090628-28090991	NONHSAT108434
4	lnc-ZKSCAN4-1	chr6:28089573-28090989	NONHSAT108435
5	lnc-ZKSCAN4-1	chr6:28089573-28090989	NONHSAT108436
6	lnc-ZKSCAN4-1	chr6:28089576-28090989	ENSG00000269293.2

No data

Variant related genes	Relation type
ZSCAN16	TF binding region
ENSG00000197153	Chromatin interaction
ENSG00000137185	Chromatin interaction
ENSG00000196331	Chromatin interaction
ENSG00000233224	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10484404	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs1150708	0.83[EUR][1000 genomes]
rs1150715	0.84[ASN][1000 genomes]
rs1150722	1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs1150723	1.00[JPT][hapmap]
rs1150725	1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1225600	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1233706	0.83[EUR][1000 genomes]
rs1600621	0.84[ASN][1000 genomes]
rs1679723	1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16893552	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs1736892	1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1778510	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2799076	1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs28475822	0.84[ASN][1000 genomes]
rs3757183	1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4141691	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs6456812	0.84[ASN][1000 genomes]
rs6456817	0.84[ASN][1000 genomes]
rs6901001	0.84[ASN][1000 genomes]
rs6902583	0.84[ASN][1000 genomes]
rs6908459	0.84[ASN][1000 genomes]
rs6910120	0.84[ASN][1000 genomes]
rs6910968	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs6918043	1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6918631	0.84[ASN][1000 genomes]
rs6922161	0.84[ASN][1000 genomes]
rs6922302	0.84[ASN][1000 genomes]
rs6929449	0.84[ASN][1000 genomes]
rs6929559	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs7742858	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs7748445	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs7752448	0.81[ASN][1000 genomes]
rs7752721	0.87[ASN][1000 genomes]
rs7759855	1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7767897	1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7769416	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs9295769	0.84[ASN][1000 genomes]
rs9461450	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9461452	0.84[ASN][1000 genomes]
rs9461453	0.84[ASN][1000 genomes]
rs9468328	0.84[ASN][1000 genomes]
rs9468335	0.84[ASN][1000 genomes]
rs9468337	0.84[ASN][1000 genomes]
rs9468341	0.84[ASN][1000 genomes]

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28073200-28091400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr6:28073200-28091800	Weak transcription	Right Ventricle	heart
3	chr6:28073400-28091200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr6:28073400-28091400	Weak transcription	NHDF-Ad	bronchial
5	chr6:28073400-28091800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:28073400-28091800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr6:28073400-28091800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr6:28073400-28092000	Weak transcription	Small Intestine	intestine
9	chr6:28073400-28092200	Weak transcription	Esophagus	oesophagus
10	chr6:28073400-28092200	Weak transcription	Gastric	stomach
11	chr6:28073400-28092200	Weak transcription	Pancreas	Pancrea
12	chr6:28073600-28091600	Weak transcription	Hela-S3	cervix
13	chr6:28073600-28091600	Weak transcription	NHEK	skin
14	chr6:28077000-28092400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:28080000-28092000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr6:28080400-28091600	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr6:28080800-28092000	Weak transcription	Fetal Intestine Small	intestine
18	chr6:28081200-28091600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr6:28081200-28091800	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr6:28081400-28091600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr6:28081400-28091800	Weak transcription	Colonic Mucosa	Colon
22	chr6:28081600-28091800	Weak transcription	HMEC	breast
23	chr6:28082000-28091000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr6:28082000-28091400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr6:28082000-28091600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr6:28082000-28092200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr6:28082200-28091000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:28082600-28091200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr6:28082600-28091600	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr6:28082600-28096200	Strong transcription	Dnd41	blood
31	chr6:28082800-28091200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr6:28084000-28091600	Weak transcription	Fetal Heart	heart
33	chr6:28084200-28091400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr6:28084200-28091600	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr6:28084200-28091800	Weak transcription	Psoas Muscle	Psoas
36	chr6:28084200-28091800	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr6:28084200-28092200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr6:28084400-28091600	Weak transcription	Fetal Kidney	kidney
39	chr6:28084400-28091800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr6:28084400-28092000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr6:28084400-28092000	Weak transcription	Aorta	Aorta
42	chr6:28084600-28091600	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr6:28084600-28092200	Weak transcription	Lung	lung
44	chr6:28084600-28092200	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr6:28084800-28091600	Weak transcription	Duodenum Mucosa	Duodenum
46	chr6:28084800-28091800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr6:28084800-28091800	Weak transcription	Brain Substantia Nigra	brain
48	chr6:28084800-28091800	Weak transcription	HUVEC	blood vessel
49	chr6:28084800-28092200	Weak transcription	Spleen	Spleen
50	chr6:28085000-28091400	Weak transcription	Fetal Brain Male	brain

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