Variant report

Variant	rs3814228
Chromosome Location	chr10:97918915-97918916
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:97889802..97891398-chr10:97917264..97919016,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCNJ-1	chr10:97917647-97920099	ENSG00000177853
2	lnc-CCNJ-1	chr10:97915954-97920099	ENSG00000177853

Variant related genes	Relation type
ENSG00000177853	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10786265	1.00[CHB][hapmap];0.83[JPT][hapmap];0.86[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10882713	1.00[ASW][hapmap];0.82[LWK][hapmap];0.91[MKK][hapmap];0.86[YRI][hapmap]
rs10882719	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10882720	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10882722	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10882724	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10882725	0.89[CHB][hapmap];0.80[CHD][hapmap];0.92[JPT][hapmap];0.84[ASN][1000 genomes]
rs10882730	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11188560	0.80[CHB][hapmap]
rs11188564	0.93[YRI][hapmap]
rs11188574	0.93[YRI][hapmap]
rs11188605	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11188624	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11188637	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11188658	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes]
rs11813897	0.80[CHB][hapmap];0.83[CHD][hapmap];0.91[GIH][hapmap]
rs11814171	0.80[AFR][1000 genomes]
rs11814327	0.93[YRI][hapmap]
rs12573650	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12573660	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17111273	1.00[ASW][hapmap];0.94[LWK][hapmap];1.00[MKK][hapmap];0.93[YRI][hapmap]
rs17111316	1.00[ASW][hapmap];0.94[LWK][hapmap];1.00[MKK][hapmap];0.86[YRI][hapmap]
rs2305844	1.00[MEX][hapmap];0.93[YRI][hapmap]
rs3088372	0.98[ASN][1000 genomes]
rs3300	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs34965352	1.00[ASN][1000 genomes]
rs3748225	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3789925	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs3827856	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs55675520	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57381231	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs59237347	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60394088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74151271	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74151274	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9783259	0.86[YRI][hapmap]

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97890800-97922400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:97891000-97927000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr10:97891800-97921400	Weak transcription	Stomach Mucosa	stomach
4	chr10:97892400-97924800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:97892800-97924200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr10:97903200-97923000	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr10:97903600-97920200	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr10:97910600-97919200	Strong transcription	Skeletal Muscle Female	skeletal muscle
9	chr10:97910600-97919800	Strong transcription	Dnd41	blood
10	chr10:97910800-97919200	Strong transcription	Fetal Intestine Large	intestine
11	chr10:97910800-97920200	Strong transcription	Fetal Muscle Leg	muscle
12	chr10:97910800-97922200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
13	chr10:97911000-97919200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr10:97911000-97919400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr10:97911000-97919400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr10:97911000-97919400	Strong transcription	Adipose Nuclei	Adipose
17	chr10:97911000-97919600	Strong transcription	Duodenum Mucosa	Duodenum
18	chr10:97911000-97919600	Strong transcription	Fetal Thymus	thymus
19	chr10:97911000-97919800	Strong transcription	Fetal Lung	lung
20	chr10:97911000-97919800	Strong transcription	Fetal Muscle Trunk	muscle
21	chr10:97911000-97920000	Strong transcription	Placenta	Placenta
22	chr10:97911000-97920400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr10:97911000-97921000	Strong transcription	Rectal Mucosa Donor 31	rectum
24	chr10:97911000-97921200	Strong transcription	Primary B cells from cord blood	blood
25	chr10:97911000-97921800	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr10:97911000-97921800	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr10:97911000-97921800	Strong transcription	Rectal Mucosa Donor 29	rectum
28	chr10:97911000-97922000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
29	chr10:97911000-97923000	Strong transcription	HUES64 Cell Line	embryonic stem cell
30	chr10:97911200-97919400	Strong transcription	H1 Cell Line	embryonic stem cell
31	chr10:97911200-97919600	Strong transcription	Duodenum Smooth Muscle	Duodenum
32	chr10:97911200-97919800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr10:97912000-97919600	Weak transcription	Gastric	stomach
34	chr10:97912200-97919200	Weak transcription	Lung	lung
35	chr10:97912400-97920800	Weak transcription	Right Ventricle	heart
36	chr10:97912400-97927800	Weak transcription	Fetal Brain Male	brain
37	chr10:97913000-97919600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr10:97913000-97920200	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr10:97913000-97925400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr10:97913200-97919400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr10:97913200-97920600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr10:97914200-97919200	Weak transcription	Aorta	Aorta
43	chr10:97914200-97919200	Weak transcription	Esophagus	oesophagus
44	chr10:97914200-97924800	Weak transcription	Fetal Intestine Small	intestine
45	chr10:97914200-97925600	Weak transcription	Fetal Stomach	stomach
46	chr10:97914200-97925800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr10:97914200-97926200	Weak transcription	Pancreas	Pancrea
48	chr10:97914600-97921800	Weak transcription	Brain Germinal Matrix	brain
49	chr10:97914800-97919000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr10:97915000-97920400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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