Variant report

Variant	rs7899794
Chromosome Location	chr10:22725459-22725460
allele	C/T
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:22)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:22 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:22532777..22535733-chr10:22725259..22727750,2	MCF-7	breast:
2	chr10:22725288..22727393-chr10:22906827..22908715,2	MCF-7	breast:
3	chr10:22654035..22655946-chr10:22725226..22727293,2	MCF-7	breast:
4	chr10:22724628..22727475-chr10:22730880..22733467,2	K562	blood:
5	chr10:22725280..22725970-chr3:182643393..182644312,2	HCT-116	colon:
6	chr10:22724055..22728117-chr10:22831126..22835240,4	MCF-7	breast:
7	chr10:22661423..22663974-chr10:22725265..22727574,2	MCF-7	breast:
8	chr10:22720460..22723028-chr10:22724618..22727294,3	MCF-7	breast:
9	chr10:22309684..22311536-chr10:22724578..22726219,2	MCF-7	breast:
10	chr10:22614072..22616553-chr10:22723702..22726327,3	MCF-7	breast:
11	chr10:22705475..22707462-chr10:22724469..22726250,2	MCF-7	breast:
12	chr10:22517700..22519413-chr10:22725254..22727174,2	MCF-7	breast:
13	chr10:22721771..22724573-chr10:22724819..22726354,2	K562	blood:
14	chr10:22629205..22631554-chr10:22724869..22726474,2	MCF-7	breast:
15	chr10:22627231..22631801-chr10:22722280..22727319,10	MCF-7	breast:
16	chr10:22725102..22726678-chr10:22737694..22740220,2	MCF-7	breast:
17	chr10:22609617..22612000-chr10:22723353..22727584,5	MCF-7	breast:
18	chr10:22725325..22727863-chr10:22750975..22754414,4	MCF-7	breast:
19	chr10:22603581..22606407-chr10:22724519..22726402,2	MCF-7	breast:
20	chr10:22541584..22543235-chr10:22725368..22728204,2	MCF-7	breast:
21	chr10:22652382..22654198-chr10:22725095..22727355,2	MCF-7	breast:
22	chr10:22721937..22724239-chr10:22725208..22728501,3	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PIP4K2A-1	chr10:22725099-22725521	NONHSAT011750

No data

Variant related genes	Relation type
ENSG00000168283	Chromatin interaction
ENSG00000148444	Chromatin interaction
ENSG00000272366	Chromatin interaction
ENSG00000269897	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10508644	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828309	1.00[CHB][hapmap]
rs11012931	1.00[EUR][1000 genomes]
rs11012991	1.00[ASN][1000 genomes]
rs11012993	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012994	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012996	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012997	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012999	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11818252	1.00[EUR][1000 genomes]
rs12243038	1.00[CHB][hapmap]
rs12248190	1.00[CHB][hapmap]
rs12251592	1.00[EUR][1000 genomes]
rs12253013	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12256920	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12258806	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12262743	1.00[CHB][hapmap]
rs12265728	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16922126	1.00[EUR][1000 genomes]
rs16922139	1.00[EUR][1000 genomes]
rs16922277	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16922285	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3004	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs55869957	1.00[EUR][1000 genomes]
rs6482212	1.00[CHB][hapmap]
rs6482213	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6482214	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6482215	1.00[ASN][1000 genomes]
rs6482216	1.00[CHB][hapmap]
rs7079531	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7079548	1.00[CHB][hapmap]
rs73598513	1.00[ASN][1000 genomes]
rs73598514	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73598515	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73598517	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73598520	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73598521	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73598526	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73598527	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73598531	1.00[EUR][1000 genomes]
rs74121396	1.00[EUR][1000 genomes]
rs74123059	1.00[EUR][1000 genomes]
rs74123070	1.00[EUR][1000 genomes]
rs7893537	1.00[CHB][hapmap]
rs7898929	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7911096	1.00[CHB][hapmap]
rs7914254	1.00[ASN][1000 genomes]
rs7918856	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7918879	1.00[CHB][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7919362	1.00[EUR][1000 genomes]
rs9783118	1.00[EUR][1000 genomes]

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22723600-22725600	Enhancers	Placenta Amnion	Placenta Amnion
2	chr10:22723800-22725600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr10:22723800-22725800	Weak transcription	A549	lung
4	chr10:22723800-22726000	Weak transcription	Hela-S3	cervix
5	chr10:22724200-22725600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr10:22724600-22725600	Enhancers	Fetal Brain Male	brain
7	chr10:22724600-22725600	Weak transcription	NHEK	skin
8	chr10:22724600-22727000	Active TSS	Osteobl	bone
9	chr10:22724800-22726000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
10	chr10:22725200-22725600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr10:22725200-22725600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr10:22725200-22725600	Flanking Active TSS	Brain Anterior Caudate	brain
13	chr10:22725200-22725600	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
14	chr10:22725200-22725600	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
15	chr10:22725200-22725600	Flanking Active TSS	Colon Smooth Muscle	Colon
16	chr10:22725200-22725600	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
17	chr10:22725200-22725600	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
18	chr10:22725200-22725600	Enhancers	Stomach Mucosa	stomach
19	chr10:22725200-22725600	Flanking Active TSS	HSMM	muscle
20	chr10:22725200-22725800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr10:22725200-22725800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr10:22725200-22725800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr10:22725200-22725800	Flanking Active TSS	Adipose Nuclei	Adipose
24	chr10:22725200-22725800	Flanking Active TSS	Brain Hippocampus Middle	brain
25	chr10:22725200-22725800	Flanking Active TSS	Esophagus	oesophagus
26	chr10:22725200-22725800	Active TSS	Rectal Mucosa Donor 29	rectum
27	chr10:22725200-22725800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
28	chr10:22725200-22725800	Flanking Active TSS	Stomach Smooth Muscle	stomach
29	chr10:22725200-22725800	Flanking Active TSS	GM12878-XiMat	blood
30	chr10:22725200-22726000	Flanking Active TSS	Primary T cells fromperipheralblood	blood
31	chr10:22725200-22726000	Enhancers	Spleen	Spleen
32	chr10:22725200-22726000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr10:22725200-22726200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr10:22725200-22726600	Active TSS	Primary T cells from cord blood	blood
35	chr10:22725200-22726600	Active TSS	Rectal Mucosa Donor 31	rectum
36	chr10:22725200-22726800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
37	chr10:22725200-22727000	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr10:22725200-22727000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr10:22725200-22727000	Active TSS	Brain Substantia Nigra	brain
40	chr10:22725200-22727200	Active TSS	Brain Germinal Matrix	brain
41	chr10:22725200-22727200	Active TSS	Rectal Smooth Muscle	rectum
42	chr10:22725200-22727400	Active TSS	Brain Cingulate Gyrus	brain
43	chr10:22725200-22727400	Active TSS	HSMMtube	muscle
44	chr10:22725400-22725600	Flanking Active TSS	ES-WA7 Cell Line	embryonic stem cell
45	chr10:22725400-22725600	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr10:22725400-22725600	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
47	chr10:22725400-22725600	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
48	chr10:22725400-22725600	Enhancers	Primary hematopoietic stem cells	blood
49	chr10:22725400-22725600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
50	chr10:22725400-22725600	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--

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