Variant report

Variant	rs10272840
Chromosome Location	chr7:128164645-128164646
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:128164390..128167279-chr7:128169902..128171980,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000273270	Chromatin interaction
ENSG00000242588	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs10223975	1.00[ASN][1000 genomes]
rs10227608	0.82[AFR][1000 genomes]
rs10231136	0.98[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10233059	0.82[AFR][1000 genomes]
rs10250369	0.82[AFR][1000 genomes]
rs10253131	0.84[AFR][1000 genomes]
rs10261037	0.83[AFR][1000 genomes]
rs10269844	0.88[AFR][1000 genomes]
rs10270431	0.82[AFR][1000 genomes]
rs11770604	0.86[ASN][1000 genomes]
rs11771884	0.85[AFR][1000 genomes]
rs11772734	1.00[ASN][1000 genomes]
rs12530672	0.86[ASN][1000 genomes]
rs12532513	0.86[ASN][1000 genomes]
rs12537208	0.86[AFR][1000 genomes]
rs12540658	1.00[ASN][1000 genomes]
rs13224451	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13224784	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13226592	0.95[ASN][1000 genomes]
rs13233642	0.95[ASN][1000 genomes]
rs13247746	1.00[ASN][1000 genomes]
rs28496126	0.86[AFR][1000 genomes]
rs28521260	0.82[AFR][1000 genomes]
rs34125589	0.83[AFR][1000 genomes]
rs34490491	0.84[AFR][1000 genomes]
rs34751214	0.81[AFR][1000 genomes]
rs4338038	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55953818	0.86[AFR][1000 genomes]
rs57890423	0.91[ASN][1000 genomes]
rs60029447	0.88[AFR][1000 genomes]
rs60654313	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6467184	0.84[AFR][1000 genomes]
rs6467201	0.82[AFR][1000 genomes]
rs6958343	0.88[AFR][1000 genomes]
rs6969343	0.87[AFR][1000 genomes]
rs71546775	0.80[ASN][1000 genomes]
rs71546785	0.88[AFR][1000 genomes]
rs71546786	0.86[AFR][1000 genomes]
rs7790839	0.96[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7798172	0.86[AFR][1000 genomes]
rs7798776	0.91[ASN][1000 genomes]
rs7801678	1.00[ASN][1000 genomes]
rs9690225	0.88[AFR][1000 genomes]
rs9690934	0.82[AFR][1000 genomes]
rs9692416	0.82[AFR][1000 genomes]

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	esv1794896	chr7:128142170-128170380	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10272840	METTL2B	cis	Skin Sun Exposed Lower leg	GTEx
rs10272840	RP11-274B21.10	cis	Esophagus Muscularis	GTEx
rs10272840	RP11-274B21.10	cis	Esophagus Mucosa	GTEx
rs10272840	RP11-274B21.10	cis	Thyroid	GTEx

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:128162800-128164800	Enhancers	Rectal Mucosa Donor 31	rectum
2	chr7:128162800-128165000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr7:128163000-128166400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr7:128163200-128165000	Enhancers	Spleen	Spleen
5	chr7:128163400-128166200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr7:128163400-128166400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr7:128163600-128164800	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr7:128163600-128169600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr7:128163600-128169800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr7:128163600-128169800	Weak transcription	Psoas Muscle	Psoas
11	chr7:128163600-128170400	Weak transcription	Lung	lung
12	chr7:128163800-128165400	Weak transcription	Gastric	stomach
13	chr7:128163800-128165600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr7:128163800-128165600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr7:128163800-128165600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr7:128163800-128165600	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr7:128163800-128165600	Enhancers	HepG2	liver
18	chr7:128163800-128165600	Weak transcription	HMEC	breast
19	chr7:128163800-128166200	Weak transcription	A549	lung
20	chr7:128163800-128169200	Weak transcription	Duodenum Mucosa	Duodenum
21	chr7:128163800-128169600	Weak transcription	Primary B cells from peripheral blood	blood
22	chr7:128163800-128169600	Weak transcription	Fetal Muscle Leg	muscle
23	chr7:128163800-128169800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr7:128163800-128169800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr7:128163800-128169800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr7:128163800-128169800	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr7:128163800-128169800	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr7:128163800-128169800	Weak transcription	Brain Anterior Caudate	brain
29	chr7:128163800-128169800	Weak transcription	Colon Smooth Muscle	Colon
30	chr7:128163800-128169800	Weak transcription	Fetal Stomach	stomach
31	chr7:128163800-128169800	Weak transcription	Left Ventricle	heart
32	chr7:128163800-128169800	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr7:128163800-128169800	Weak transcription	Small Intestine	intestine
34	chr7:128163800-128169800	Weak transcription	Dnd41	blood
35	chr7:128163800-128169800	Weak transcription	GM12878-XiMat	blood
36	chr7:128163800-128170000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr7:128163800-128170000	Weak transcription	Brain Substantia Nigra	brain
38	chr7:128163800-128170000	Weak transcription	Stomach Mucosa	stomach
39	chr7:128163800-128170000	Weak transcription	NH-A	brain
40	chr7:128163800-128170200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr7:128163800-128170200	Weak transcription	Fetal Thymus	thymus
42	chr7:128164000-128165600	Weak transcription	NHEK	skin
43	chr7:128164000-128169200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr7:128164000-128169800	Weak transcription	Adipose Nuclei	Adipose
45	chr7:128164000-128169800	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr7:128164000-128170200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr7:128164200-128165400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr7:128164200-128169200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr7:128164200-128169800	Weak transcription	Brain Cingulate Gyrus	brain
50	chr7:128164200-128169800	Weak transcription	Duodenum Smooth Muscle	Duodenum

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