Variant report

Variant	rs3818933
Chromosome Location	chr6:109691944-109691945
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:109667580..109670112-chr6:109691835..109693593,2	MCF-7	breast:
2	chr6:109680156..109682689-chr6:109691352..109692864,2	K562	blood:
3	chr6:109626552..109629448-chr6:109691931..109694820,2	K562	blood:
4	chr6:109654230..109656152-chr6:109690482..109693249,2	MCF-7	breast:
5	chr6:109666475..109669130-chr6:109690489..109693013,2	K562	blood:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CD164-1	chr6:109691614-109694072	NONHSAT114396

No data

Variant related genes	Relation type
ENSG00000201023	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1046943	0.87[EUR][1000 genomes]
rs1074765	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1074766	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10872033	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11251	0.96[EUR][1000 genomes]
rs12214147	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12529733	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13219952	0.93[EUR][1000 genomes]
rs1476387	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1521907	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17070591	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1853330	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1885690	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1885691	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2211288	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2236084	0.87[EUR][1000 genomes]
rs2277113	0.80[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2884037	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35146243	0.86[EUR][1000 genomes]
rs3734652	0.87[EUR][1000 genomes]
rs3757230	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3757231	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3757235	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3778474	0.96[EUR][1000 genomes]
rs3778478	0.87[EUR][1000 genomes]
rs4636056	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4945831	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs4946967	0.96[EUR][1000 genomes]
rs4946970	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4946976	0.88[EUR][1000 genomes]
rs58644322	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59597139	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6914216	0.93[EUR][1000 genomes]
rs6920372	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6939548	0.87[EUR][1000 genomes]
rs6939953	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs699700	0.96[EUR][1000 genomes]
rs730089	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs736830	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs746794	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7748669	0.91[EUR][1000 genomes]
rs7751582	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7754650	0.93[EUR][1000 genomes]
rs7768973	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8465	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs910730	0.81[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs9320286	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9372213	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9386799	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9480947	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9480949	0.92[EUR][1000 genomes]
rs9480956	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9480958	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9487064	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487066	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487069	0.96[EUR][1000 genomes]
rs9487070	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9487076	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487084	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487085	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487103	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs974034	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9791241	0.87[EUR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs3818933	RP11-425D10.10	cis	Skin Sun Exposed Lower leg	GTEx
rs3818933	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL
rs3818933	C6orf199	Cis_1M	lymphoblastoid	RTeQTL
rs3818933	RP11-425D10.10	cis	Whole Blood	GTEx
rs3818933	SMPD2	cis	Esophagus Mucosa	GTEx

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109675000-109692600	Strong transcription	Primary neutrophils fromperipheralblood	blood
2	chr6:109675000-109693200	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr6:109675000-109694400	Strong transcription	Rectal Mucosa Donor 29	rectum
4	chr6:109675000-109694600	Strong transcription	Primary T cells fromperipheralblood	blood
5	chr6:109675000-109700800	Strong transcription	Placenta	Placenta
6	chr6:109675200-109693200	Strong transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:109676800-109693800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr6:109677000-109698200	Strong transcription	Fetal Intestine Large	intestine
9	chr6:109677600-109695000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr6:109677800-109700600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:109678200-109694600	Strong transcription	Fetal Thymus	thymus
12	chr6:109678200-109695200	Strong transcription	Duodenum Mucosa	Duodenum
13	chr6:109678400-109694400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr6:109678400-109694400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:109678600-109693200	Strong transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:109678600-109693400	Strong transcription	Primary T helper cells fromperipheralblood	blood
17	chr6:109678800-109695400	Strong transcription	Rectal Mucosa Donor 31	rectum
18	chr6:109678800-109699000	Strong transcription	Dnd41	blood
19	chr6:109679000-109693200	Strong transcription	K562	blood
20	chr6:109679200-109700400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr6:109679400-109700600	Strong transcription	HUES6 Cell Line	embryonic stem cell
22	chr6:109680400-109697200	Weak transcription	Fetal Brain Male	brain
23	chr6:109680600-109700600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr6:109680800-109694400	Strong transcription	Primary B cells from peripheral blood	blood
25	chr6:109682400-109692600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr6:109682600-109700800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
27	chr6:109683200-109699800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
28	chr6:109683600-109692800	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr6:109683800-109693400	Strong transcription	Primary B cells from cord blood	blood
30	chr6:109683800-109700600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:109684000-109692000	Weak transcription	Esophagus	oesophagus
32	chr6:109684000-109692800	Weak transcription	NHLF	lung
33	chr6:109684000-109693200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
34	chr6:109684000-109693400	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr6:109684000-109693400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr6:109684000-109693400	Weak transcription	Stomach Mucosa	stomach
37	chr6:109684000-109694600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr6:109684000-109694600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr6:109684000-109694600	Weak transcription	Aorta	Aorta
40	chr6:109684000-109694600	Weak transcription	Fetal Heart	heart
41	chr6:109684000-109694600	Weak transcription	Gastric	stomach
42	chr6:109684000-109694600	Weak transcription	Ovary	ovary
43	chr6:109684000-109694600	Weak transcription	Pancreas	Pancrea
44	chr6:109684000-109694800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr6:109684000-109695400	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr6:109684000-109695800	Weak transcription	Spleen	Spleen
47	chr6:109684000-109702400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr6:109684200-109693600	Strong transcription	Fetal Muscle Trunk	muscle
49	chr6:109684200-109694600	Weak transcription	Brain Hippocampus Middle	brain
50	chr6:109684200-109694600	Weak transcription	Lung	lung

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