Variant report

Variant	rs7790839
Chromosome Location	chr7:128165680-128165681
allele	A/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:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-METTL2B-2	chr7:128165182-128166252	NONHSAT123197

Variant related genes	Relation type
ENSG00000242588	Chromatin interaction
ENSG00000273270	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10223975	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10227608	0.86[AFR][1000 genomes]
rs10231136	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10233059	0.86[AFR][1000 genomes]
rs10250369	0.86[AFR][1000 genomes]
rs10253131	0.80[AFR][1000 genomes]
rs10261037	0.87[AFR][1000 genomes]
rs10269844	0.92[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs10272840	0.96[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11766319	0.83[EUR][1000 genomes]
rs11767993	0.82[EUR][1000 genomes]
rs11770604	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11771884	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs11772734	1.00[ASN][1000 genomes]
rs12530672	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12532513	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12537208	0.90[AFR][1000 genomes]
rs12540658	1.00[ASN][1000 genomes]
rs13224451	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13224784	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13226592	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13233642	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13247746	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28496126	0.90[AFR][1000 genomes]
rs28521260	0.86[AFR][1000 genomes]
rs34125589	0.82[EUR][1000 genomes]
rs34490491	0.80[AFR][1000 genomes]
rs35603038	0.80[AFR][1000 genomes]
rs4338038	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55953818	0.90[AFR][1000 genomes]
rs57890423	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60029447	0.84[AFR][1000 genomes]
rs60654313	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6467181	0.85[EUR][1000 genomes]
rs6467184	0.88[AFR][1000 genomes]
rs6958343	0.92[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs6963982	0.81[EUR][1000 genomes]
rs6969343	0.89[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs71546775	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs71546785	0.88[AFR][1000 genomes]
rs71546786	0.90[AFR][1000 genomes]
rs7776915	0.82[AFR][1000 genomes]
rs7778169	0.82[AFR][1000 genomes]
rs7786772	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs7798172	0.90[AFR][1000 genomes]
rs7798776	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7801678	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9690225	0.92[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs9769753	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:6)

SNP	Gene	Cis/trans	Tissue	Source
rs7790839	METTL2B	cis	Skin Sun Exposed Lower leg	GTEx
rs7790839	METTL2B	cis	Artery Tibial	GTEx
rs7790839	CICP14	cis	Muscle Skeletal	GTEx
rs7790839	RP11-274B21.10	cis	Thyroid	GTEx
rs7790839	RP11-274B21.10	cis	Esophagus Mucosa	GTEx
rs7790839	RP11-274B21.10	cis	Esophagus Muscularis	GTEx

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:128163000-128166400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
2	chr7:128163400-128166200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr7:128163400-128166400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr7:128163600-128169600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr7:128163600-128169800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr7:128163600-128169800	Weak transcription	Psoas Muscle	Psoas
7	chr7:128163600-128170400	Weak transcription	Lung	lung
8	chr7:128163800-128166200	Weak transcription	A549	lung
9	chr7:128163800-128169200	Weak transcription	Duodenum Mucosa	Duodenum
10	chr7:128163800-128169600	Weak transcription	Primary B cells from peripheral blood	blood
11	chr7:128163800-128169600	Weak transcription	Fetal Muscle Leg	muscle
12	chr7:128163800-128169800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr7:128163800-128169800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr7:128163800-128169800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr7:128163800-128169800	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr7:128163800-128169800	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr7:128163800-128169800	Weak transcription	Brain Anterior Caudate	brain
18	chr7:128163800-128169800	Weak transcription	Colon Smooth Muscle	Colon
19	chr7:128163800-128169800	Weak transcription	Fetal Stomach	stomach
20	chr7:128163800-128169800	Weak transcription	Left Ventricle	heart
21	chr7:128163800-128169800	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr7:128163800-128169800	Weak transcription	Small Intestine	intestine
23	chr7:128163800-128169800	Weak transcription	Dnd41	blood
24	chr7:128163800-128169800	Weak transcription	GM12878-XiMat	blood
25	chr7:128163800-128170000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr7:128163800-128170000	Weak transcription	Brain Substantia Nigra	brain
27	chr7:128163800-128170000	Weak transcription	Stomach Mucosa	stomach
28	chr7:128163800-128170000	Weak transcription	NH-A	brain
29	chr7:128163800-128170200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr7:128163800-128170200	Weak transcription	Fetal Thymus	thymus
31	chr7:128164000-128169200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr7:128164000-128169800	Weak transcription	Adipose Nuclei	Adipose
33	chr7:128164000-128169800	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr7:128164000-128170200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr7:128164200-128169200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr7:128164200-128169800	Weak transcription	Brain Cingulate Gyrus	brain
37	chr7:128164200-128169800	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr7:128164200-128169800	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr7:128164400-128169600	Weak transcription	Brain Hippocampus Middle	brain
40	chr7:128164400-128169800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr7:128164400-128169800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr7:128164400-128169800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr7:128164400-128169800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr7:128164400-128169800	Weak transcription	Pancreas	Pancrea
45	chr7:128164400-128169800	Weak transcription	K562	blood
46	chr7:128164400-128170000	Weak transcription	Fetal Lung	lung
47	chr7:128164400-128170000	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr7:128164400-128170000	Weak transcription	Hela-S3	cervix
49	chr7:128164400-128170200	Weak transcription	Colonic Mucosa	Colon
50	chr7:128164400-128170200	Weak transcription	Fetal Intestine Large	intestine

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