Variant report

Variant	rs7670841
Chromosome Location	chr4:22428434-22428435
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	chr4:22427307..22429305-chr4:22435269..22437253,2	K562	blood:

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1026656	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10805234	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10938896	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12506504	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13106386	0.81[JPT][hapmap]
rs13109695	0.81[MEX][hapmap];0.82[TSI][hapmap]
rs13132217	0.81[JPT][hapmap]
rs13135121	0.81[MEX][hapmap];0.82[TSI][hapmap]
rs1392596	0.90[CHB][hapmap];0.88[JPT][hapmap];0.91[ASN][1000 genomes]
rs1392597	0.83[ASN][1000 genomes]
rs1564135	0.81[MEX][hapmap];0.82[TSI][hapmap]
rs16872669	0.81[MEX][hapmap];0.80[MKK][hapmap]
rs1827237	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1841824	0.86[MEX][hapmap];0.82[TSI][hapmap]
rs1841825	0.83[AFR][1000 genomes]
rs1841828	0.94[ASW][hapmap];0.91[LWK][hapmap];0.86[MEX][hapmap];0.94[MKK][hapmap];0.82[TSI][hapmap];0.86[YRI][hapmap];0.95[AFR][1000 genomes]
rs2126632	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2290953	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2323520	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2323521	0.94[CEU][hapmap];0.81[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.86[MKK][hapmap];0.84[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2323522	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28490883	0.82[ASN][1000 genomes]
rs4697012	0.82[JPT][hapmap]
rs6821181	0.81[CHD][hapmap]
rs6841401	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3349061	chr4:22379581-22887563	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv878752	chr4:22414023-22501043	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv821634	chr4:22427074-22865948	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv3402191	chr4:22428145-22428454	Weak transcription Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7670841	GPR125	cis	cerebellum	SCAN

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:22371600-22449800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:22383200-22438000	Weak transcription	Lung	lung
3	chr4:22383600-22442800	Weak transcription	A549	lung
4	chr4:22385400-22430400	Weak transcription	Psoas Muscle	Psoas
5	chr4:22386000-22446600	Weak transcription	Fetal Thymus	thymus
6	chr4:22388200-22432400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr4:22388200-22442800	Weak transcription	Brain Germinal Matrix	brain
8	chr4:22388400-22473600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr4:22388800-22469600	Weak transcription	Colonic Mucosa	Colon
10	chr4:22389200-22473600	Weak transcription	Fetal Brain Male	brain
11	chr4:22390600-22439600	Weak transcription	Stomach Smooth Muscle	stomach
12	chr4:22390600-22456200	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr4:22390600-22459800	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr4:22390800-22429400	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr4:22393000-22435200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr4:22393400-22444800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr4:22393600-22459800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr4:22393800-22446400	Weak transcription	NH-A	brain
19	chr4:22393800-22453000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr4:22399800-22442800	Weak transcription	Fetal Brain Female	brain
21	chr4:22400000-22448000	Weak transcription	Left Ventricle	heart
22	chr4:22400800-22429200	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr4:22400800-22430000	Weak transcription	Adipose Nuclei	Adipose
24	chr4:22400800-22449600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr4:22400800-22461800	Weak transcription	Gastric	stomach
26	chr4:22401200-22431000	Weak transcription	Ovary	ovary
27	chr4:22405400-22446000	Weak transcription	Pancreas	Pancrea
28	chr4:22412800-22446000	Weak transcription	Thymus	Thymus
29	chr4:22414600-22430000	Weak transcription	Fetal Heart	heart
30	chr4:22415200-22430200	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr4:22416800-22449600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr4:22417600-22442200	Weak transcription	Hela-S3	cervix
33	chr4:22417800-22436200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
34	chr4:22418000-22435200	Strong transcription	Liver	Liver
35	chr4:22419200-22428800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr4:22419200-22476200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr4:22419400-22465800	Weak transcription	HUVEC	blood vessel
38	chr4:22420200-22436400	Weak transcription	Colon Smooth Muscle	Colon
39	chr4:22420600-22488000	Weak transcription	Aorta	Aorta
40	chr4:22420800-22428600	Strong transcription	HUES64 Cell Line	embryonic stem cell
41	chr4:22420800-22436400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr4:22421200-22442600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr4:22422000-22441400	Weak transcription	Right Ventricle	heart
44	chr4:22422000-22453400	Weak transcription	Esophagus	oesophagus
45	chr4:22422600-22442800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr4:22423000-22429800	Weak transcription	Fetal Lung	lung
47	chr4:22423400-22430200	Weak transcription	NHEK	skin
48	chr4:22423800-22432000	Weak transcription	Fetal Muscle Trunk	muscle
49	chr4:22424400-22457800	Weak transcription	Dnd41	blood
50	chr4:22424600-22431000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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