Variant report

Variant	rs7084339
Chromosome Location	chr10:96043732-96043733
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	chr10:96042514..96045602-chr10:96046658..96049792,3	K562	blood:
2	chr10:96041976..96044025-chr10:96305473..96308140,2	K562	blood:

Variant related genes	Relation type
ENSG00000268894	Chromatin interaction
ENSG00000119969	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10509670	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10509671	0.82[CEU][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10786156	0.86[MKK][hapmap]
rs10786161	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10882416	0.94[ASW][hapmap];0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10882422	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10882424	0.88[ASW][hapmap];0.82[CEU][hapmap];0.89[CHB][hapmap];0.97[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882430	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882437	0.88[ASW][hapmap];0.82[CEU][hapmap];0.91[GIH][hapmap];0.82[LWK][hapmap];0.93[MEX][hapmap];0.87[MKK][hapmap];0.86[YRI][hapmap];0.88[AMR][1000 genomes]
rs11187850	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11187851	0.82[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11187853	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11187876	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11187881	0.82[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11187893	0.93[MEX][hapmap]
rs11187901	0.88[ASW][hapmap];0.82[CEU][hapmap];0.91[GIH][hapmap];0.82[LWK][hapmap];0.93[MEX][hapmap];0.87[MKK][hapmap];0.90[YRI][hapmap];0.88[AMR][1000 genomes]
rs12217597	0.93[MEX][hapmap]
rs12220125	0.82[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12263737	0.88[ASW][hapmap];0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12773229	0.86[AMR][1000 genomes]
rs12780491	0.93[MEX][hapmap]
rs2274223	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3765524	0.88[ASW][hapmap];0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3781264	0.82[CEU][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3781265	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3818432	0.82[CEU][hapmap];0.89[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6583934	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6583935	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6583937	0.81[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7074125	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7081265	0.85[MEX][hapmap]
rs7084988	0.82[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7085378	0.82[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7092226	0.88[ASW][hapmap];0.88[GIH][hapmap];0.86[LWK][hapmap];0.85[MEX][hapmap];0.82[MKK][hapmap];0.86[YRI][hapmap]
rs7094783	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7096037	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7096678	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7099485	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7100430	0.88[ASW][hapmap];0.82[CEU][hapmap];0.91[GIH][hapmap];0.93[MEX][hapmap];0.88[AMR][1000 genomes]
rs7897678	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7897963	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7903902	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7908638	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7914672	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036676	chr10:95851376-96103876	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7084339	NOC3L	cis	parietal	SCAN

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95994600-96045400	Weak transcription	Lung	lung
2	chr10:95995800-96051800	Weak transcription	Fetal Kidney	kidney
3	chr10:96015000-96070200	Weak transcription	Fetal Brain Female	brain
4	chr10:96031800-96048000	Weak transcription	Brain Germinal Matrix	brain
5	chr10:96031800-96121000	Weak transcription	Stomach Mucosa	stomach
6	chr10:96034600-96046200	Weak transcription	Brain Angular Gyrus	brain
7	chr10:96034600-96052600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr10:96034800-96045800	Weak transcription	HSMM	muscle
9	chr10:96034800-96048600	Weak transcription	Spleen	Spleen
10	chr10:96035000-96045200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr10:96035200-96046600	Weak transcription	NH-A	brain
12	chr10:96035400-96043800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr10:96035400-96052400	Weak transcription	Brain Substantia Nigra	brain
14	chr10:96035600-96047400	Strong transcription	Fetal Muscle Trunk	muscle
15	chr10:96035600-96052400	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr10:96035600-96066800	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr10:96035800-96046600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr10:96036000-96081600	Weak transcription	Left Ventricle	heart
19	chr10:96036200-96052000	Weak transcription	Fetal Lung	lung
20	chr10:96037400-96045200	Weak transcription	Fetal Intestine Small	intestine
21	chr10:96037400-96046000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr10:96037600-96043800	Weak transcription	Colonic Mucosa	Colon
23	chr10:96037600-96043800	Weak transcription	Fetal Stomach	stomach
24	chr10:96037800-96047200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr10:96037800-96069000	Weak transcription	Gastric	stomach
26	chr10:96038800-96049400	Strong transcription	Rectal Mucosa Donor 29	rectum
27	chr10:96039200-96043800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr10:96039200-96046400	Strong transcription	Fetal Muscle Leg	muscle
29	chr10:96039600-96051200	Strong transcription	Fetal Intestine Large	intestine
30	chr10:96040000-96043800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr10:96040000-96043800	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr10:96040000-96043800	Weak transcription	Rectal Smooth Muscle	rectum
33	chr10:96040000-96044000	Weak transcription	Colon Smooth Muscle	Colon
34	chr10:96040000-96046400	Weak transcription	Osteobl	bone
35	chr10:96040000-96047200	Weak transcription	Fetal Heart	heart
36	chr10:96040000-96052200	Weak transcription	Adipose Nuclei	Adipose
37	chr10:96040000-96052200	Weak transcription	Brain Hippocampus Middle	brain
38	chr10:96040200-96066200	Weak transcription	Pancreas	Pancrea
39	chr10:96040400-96046400	Weak transcription	NHLF	lung
40	chr10:96040400-96048200	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr10:96040400-96048400	Weak transcription	Brain Anterior Caudate	brain
42	chr10:96040600-96046600	Strong transcription	A549	lung
43	chr10:96041200-96046200	Strong transcription	Rectal Mucosa Donor 31	rectum
44	chr10:96041400-96044400	Strong transcription	Duodenum Mucosa	Duodenum
45	chr10:96041600-96045200	Weak transcription	HSMMtube	muscle
46	chr10:96041800-96044000	Weak transcription	Placenta	Placenta
47	chr10:96041800-96046400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr10:96042600-96046600	Weak transcription	HUVEC	blood vessel
49	chr10:96042800-96046400	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr10:96043400-96046400	Strong transcription	Cortex derived primary cultured neurospheres	brain

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