Variant report

Variant	rs10829199
Chromosome Location	chr10:18967941-18967942
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:18938885..18940645-chr10:18967631..18969812,2	K562	blood:
2	chr10:18962456..18966517-chr10:18966877..18973376,6	K562	blood:
3	chr10:18963664..18965385-chr10:18966665..18968377,2	K562	blood:
4	chr10:18966816..18969348-chr10:18971030..18973085,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CACNB2-1	chr10:18967049-18970567	NONHSAT011652

Variant related genes	Relation type
ENSG00000241058	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10732437	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10741120	0.90[EUR][1000 genomes]
rs10741131	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10764587	1.00[ASN][1000 genomes]
rs10764661	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829156	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829157	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1917209	1.00[ASN][1000 genomes]
rs1917823	1.00[ASN][1000 genomes]
rs4316423	0.87[EUR][1000 genomes]
rs4338439	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4456162	1.00[ASN][1000 genomes]
rs4475830	1.00[ASN][1000 genomes]
rs4606373	1.00[ASN][1000 genomes]
rs4634984	1.00[ASN][1000 genomes]
rs4636555	1.00[ASN][1000 genomes]
rs4748479	1.00[ASN][1000 genomes]
rs4748493	1.00[ASN][1000 genomes]
rs4748494	1.00[ASN][1000 genomes]
rs4748502	0.91[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs4748504	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4748505	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4748507	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62636215	0.89[ASN][1000 genomes]
rs6482534	1.00[ASN][1000 genomes]
rs6482545	0.89[ASN][1000 genomes]
rs6482546	0.89[ASN][1000 genomes]
rs6482565	0.85[EUR][1000 genomes]
rs6482567	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7075678	1.00[ASN][1000 genomes]
rs7077786	1.00[ASN][1000 genomes]
rs7081435	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7082235	1.00[ASN][1000 genomes]
rs7084709	0.90[EUR][1000 genomes]
rs7090926	0.89[ASN][1000 genomes]
rs7093907	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7095666	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7098721	1.00[ASN][1000 genomes]
rs7099307	1.00[ASN][1000 genomes]
rs7100884	1.00[ASN][1000 genomes]
rs7895709	1.00[ASN][1000 genomes]
rs7895775	1.00[ASN][1000 genomes]
rs7908550	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7909552	0.80[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7911922	1.00[ASN][1000 genomes]
rs7918933	1.00[ASN][1000 genomes]
rs7922241	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7923072	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8181345	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9731044	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv466762	chr10:18932172-18976659	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv550121	chr10:18932172-18976659	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18949400-18973200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:18949600-18972000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr10:18951000-18971800	Weak transcription	Spleen	Spleen
4	chr10:18951000-18976400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr10:18951400-18973800	Weak transcription	Aorta	Aorta
6	chr10:18954400-18969200	Weak transcription	Right Ventricle	heart
7	chr10:18954400-18973400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:18955000-18972600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:18955400-18969200	Weak transcription	Brain Angular Gyrus	brain
10	chr10:18955600-18968000	Weak transcription	Brain Substantia Nigra	brain
11	chr10:18956000-18970000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr10:18956000-18972200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr10:18956200-18973200	Weak transcription	Small Intestine	intestine
14	chr10:18957400-18968400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr10:18957400-18971600	Weak transcription	Fetal Heart	heart
16	chr10:18957600-18969600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr10:18957600-18971200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr10:18957800-18971000	Weak transcription	Brain Anterior Caudate	brain
19	chr10:18958000-18968400	Strong transcription	HUES64 Cell Line	embryonic stem cell
20	chr10:18958200-18969800	Weak transcription	NHEK	skin
21	chr10:18958200-18970000	Weak transcription	HSMMtube	muscle
22	chr10:18959000-18973600	Weak transcription	Left Ventricle	heart
23	chr10:18960000-18972400	Weak transcription	Brain Hippocampus Middle	brain
24	chr10:18960200-18969800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr10:18960400-18970200	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr10:18960800-18970200	Weak transcription	NHLF	lung
27	chr10:18960800-18973400	Weak transcription	Ovary	ovary
28	chr10:18961000-18970800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr10:18961000-18973600	Weak transcription	Thymus	Thymus
30	chr10:18961600-18971000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
31	chr10:18961800-18970200	Weak transcription	HMEC	breast
32	chr10:18962400-18973600	Weak transcription	Fetal Intestine Small	intestine
33	chr10:18962400-18973600	Weak transcription	Fetal Stomach	stomach
34	chr10:18963200-18973400	Weak transcription	Pancreas	Pancrea
35	chr10:18963800-18970000	Weak transcription	NHDF-Ad	bronchial
36	chr10:18964000-18972200	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr10:18964000-18973000	Weak transcription	Primary T cells from cord blood	blood
38	chr10:18964200-18973400	Weak transcription	Psoas Muscle	Psoas
39	chr10:18964600-18973600	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr10:18964600-18973800	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr10:18964800-18969800	Weak transcription	Osteobl	bone
42	chr10:18964800-18970000	Weak transcription	A549	lung
43	chr10:18964800-18970400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr10:18964800-18970800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr10:18964800-18973400	Weak transcription	Fetal Brain Female	brain
46	chr10:18964800-18973400	Weak transcription	HUVEC	blood vessel
47	chr10:18964800-18973800	Weak transcription	Fetal Muscle Trunk	muscle
48	chr10:18965000-18972800	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr10:18965000-18973400	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr10:18965200-18968400	Weak transcription	Primary neutrophils fromperipheralblood	blood

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