Variant report

Variant	rs72854546
Chromosome Location	chr6:28350969-28350970
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28302793..28305456-chr6:28347856..28351806,3	MCF-7	breast:
2	chr6:28302573..28306599-chr6:28349951..28354470,6	K562	blood:
3	chr6:28316530..28318158-chr6:28350135..28352700,2	K562	blood:
4	chr6:28336816..28339223-chr6:28349568..28351639,2	MCF-7	breast:
5	chr6:27858275..27861219-chr6:28349730..28352798,3	MCF-7	breast:
6	chr6:28042414..28044265-chr6:28350613..28353294,2	K562	blood:
7	chr6:28302507..28305351-chr6:28350132..28351669,2	K562	blood:
8	chr6:28189695..28192033-chr6:28349571..28352462,4	K562	blood:
9	chr6:28098221..28099883-chr6:28348918..28351398,2	MCF-7	breast:
10	chr6:28187278..28189645-chr6:28349848..28351599,2	K562	blood:
11	chr6:28189695..28193201-chr6:28349960..28353387,4	K562	blood:
12	chr6:28346545..28348363-chr6:28349584..28351262,2	MCF-7	breast:
13	chr6:28349465..28351465-chr6:28394048..28396108,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000137185	Chromatin interaction
ENSG00000233224	Chromatin interaction
ENSG00000196331	Chromatin interaction
ENSG00000235109	Chromatin interaction
ENSG00000197153	Chromatin interaction
ENSG00000189298	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs11546572	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2079705	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2232430	0.81[EUR][1000 genomes]
rs2394101	1.00[EUR][1000 genomes]
rs2531818	0.81[EUR][1000 genomes]
rs2531821	0.89[EUR][1000 genomes]
rs28382590	0.84[EUR][1000 genomes]
rs28382595	0.84[EUR][1000 genomes]
rs28382599	0.84[EUR][1000 genomes]
rs28382602	0.82[EUR][1000 genomes]
rs28382603	0.84[EUR][1000 genomes]
rs28382609	0.82[EUR][1000 genomes]
rs28382614	0.84[EUR][1000 genomes]
rs28745594	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34757087	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34951544	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35062161	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35758328	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41269285	1.00[AFR][1000 genomes]
rs41269289	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs41269291	1.00[AFR][1000 genomes]
rs41270579	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41270589	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41270593	0.80[EUR][1000 genomes]
rs41270596	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4540253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55965649	0.80[EUR][1000 genomes]
rs56043329	0.82[EUR][1000 genomes]
rs56975420	0.82[EUR][1000 genomes]
rs58078500	0.84[EUR][1000 genomes]
rs59653352	0.80[EUR][1000 genomes]
rs62620226	1.00[AFR][1000 genomes]
rs72844204	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72844212	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72844218	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs72844220	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72844223	1.00[EUR][1000 genomes]
rs72844224	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72844225	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72844226	1.00[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72844244	0.84[EUR][1000 genomes]
rs72846777	1.00[AFR][1000 genomes]
rs72846788	1.00[AFR][1000 genomes]
rs72846792	1.00[AFR][1000 genomes]
rs72846802	1.00[AFR][1000 genomes]
rs72849204	1.00[AFR][1000 genomes]
rs72849206	1.00[AFR][1000 genomes]
rs72849210	1.00[AFR][1000 genomes]
rs72849214	1.00[AFR][1000 genomes]
rs72849222	1.00[AFR][1000 genomes]
rs72850077	0.82[EUR][1000 genomes]
rs72850297	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs72850298	1.00[AFR][1000 genomes]
rs72850299	1.00[AFR][1000 genomes]
rs72850300	1.00[AFR][1000 genomes]
rs72850302	1.00[AFR][1000 genomes]
rs72854503	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs72854515	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs72854521	1.00[AFR][1000 genomes]
rs72854522	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs72854524	1.00[AMR][1000 genomes]
rs72854525	1.00[AFR][1000 genomes]
rs72854527	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72854531	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72854533	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72854535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72854536	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72854542	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72854553	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72854556	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7752415	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7770236	1.00[EUR][1000 genomes]

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28324400-28357200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr6:28324400-28357600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr6:28324600-28358600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr6:28333800-28351000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr6:28334200-28351000	Weak transcription	Gastric	stomach
6	chr6:28334200-28351200	Weak transcription	Spleen	Spleen
7	chr6:28334400-28351000	Weak transcription	Esophagus	oesophagus
8	chr6:28334600-28351000	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr6:28345000-28361600	Strong transcription	Dnd41	blood
10	chr6:28348400-28351000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:28348400-28357800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:28348600-28351000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:28348600-28351000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr6:28348800-28351000	Weak transcription	Placenta	Placenta
15	chr6:28350000-28351000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr6:28350000-28351000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr6:28350200-28351000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr6:28350200-28351000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr6:28350200-28351000	Weak transcription	Pancreas	Pancrea
20	chr6:28350200-28351200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:28350200-28351600	Active TSS	A549	lung
22	chr6:28350400-28351000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:28350400-28351000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr6:28350400-28351000	Flanking Active TSS	Liver	Liver
25	chr6:28350400-28351400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:28350400-28351800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr6:28350400-28351800	Active TSS	Rectal Mucosa Donor 29	rectum
28	chr6:28350400-28353600	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr6:28350400-28357600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr6:28350400-28358200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr6:28350400-28358200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr6:28350600-28351000	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
33	chr6:28350600-28351000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
34	chr6:28350600-28351000	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
35	chr6:28350600-28351000	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr6:28350600-28351000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
37	chr6:28350600-28351000	Weak transcription	Primary T cells from cord blood	blood
38	chr6:28350600-28351000	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr6:28350600-28351000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr6:28350600-28351000	Flanking Active TSS	NHLF	lung
41	chr6:28350600-28351000	Flanking Active TSS	Osteobl	bone
42	chr6:28350600-28351200	Flanking Active TSS	HepG2	liver
43	chr6:28350600-28351200	Active TSS	NHEK	skin
44	chr6:28350600-28351400	Active TSS	iPS-18 Cell Line	embryonic stem cell
45	chr6:28350600-28351400	Active TSS	Primary T helper cells PMA-I stimulated	--
46	chr6:28350600-28351400	Active TSS	Fetal Intestine Small	intestine
47	chr6:28350600-28351400	Active TSS	Fetal Muscle Leg	muscle
48	chr6:28350600-28351400	Active TSS	Fetal Stomach	stomach
49	chr6:28350600-28351400	Active TSS	Psoas Muscle	Psoas
50	chr6:28350600-28351400	Active TSS	NH-A	brain

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