Variant report

Variant	rs9480947
Chromosome Location	chr6:109718565-109718566
allele	C/G
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:109717242..109719196-chr6:109761778..109764072,2	MCF-7	breast:
2	chr6:109704505..109707009-chr6:109717499..109719402,2	K562	blood:
3	chr6:109711182..109714084-chr6:109716397..109718567,2	K562	blood:
4	chr6:109509141..109509672-chr6:109717963..109718614,2	K562	blood:
5	chr6:109701635..109705830-chr6:109715180..109719953,6	MCF-7	breast:
6	chr6:109702263..109704177-chr6:109716897..109718739,2	MCF-7	breast:
7	chr6:109716676..109719129-chr6:109720969..109724043,3	K562	blood:
8	chr6:109703381..109705825-chr6:109717460..109719617,2	K562	blood:
9	chr6:109508774..109509687-chr6:109718027..109718877,3	MCF-7	breast:
10	chr6:109706394..109711073-chr6:109716163..109719392,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000260273	Chromatin interaction
ENSG00000135535	Chromatin interaction
ENSG00000135587	Chromatin interaction
ENSG00000185250	Chromatin interaction

Extended variants
information (count: 86 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10457192	0.88[CEU][hapmap]
rs10457194	0.88[CEU][hapmap]
rs10457195	0.88[CEU][hapmap]
rs1046943	1.00[CEU][hapmap];0.95[YRI][hapmap];0.88[EUR][1000 genomes]
rs1054607	0.85[YRI][hapmap]
rs1074765	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1074766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10872033	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11153183	0.88[CEU][hapmap]
rs11251	0.96[CEU][hapmap];0.82[JPT][hapmap];0.94[EUR][1000 genomes]
rs11754455	0.88[CEU][hapmap]
rs11755641	0.88[CEU][hapmap]
rs12194061	0.88[CEU][hapmap]
rs12197180	0.88[CEU][hapmap]
rs12198938	0.88[CEU][hapmap]
rs12199154	0.88[CEU][hapmap]
rs12212476	0.88[CEU][hapmap]
rs12214147	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12529733	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13219952	0.95[EUR][1000 genomes]
rs13220915	0.88[CEU][hapmap]
rs1406899	0.88[CEU][hapmap]
rs1476387	1.00[CEU][hapmap];0.82[JPT][hapmap];0.90[YRI][hapmap];0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1521907	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17070591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17070656	0.83[YRI][hapmap]
rs1853330	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1885690	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1885691	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2024850	0.88[CEU][hapmap]
rs2024853	0.88[CEU][hapmap]
rs2211288	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2236084	1.00[CEU][hapmap];0.95[YRI][hapmap];0.88[EUR][1000 genomes]
rs2277113	1.00[CEU][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.90[EUR][1000 genomes]
rs2277114	0.88[CEU][hapmap]
rs2884037	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35146243	0.88[EUR][1000 genomes]
rs3734652	1.00[CEU][hapmap];0.95[YRI][hapmap];0.88[EUR][1000 genomes]
rs3757230	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3757231	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3757235	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3778474	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs3778478	0.88[EUR][1000 genomes]
rs3799842	0.96[CEU][hapmap];0.80[YRI][hapmap]
rs3818933	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4636056	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4945831	0.95[EUR][1000 genomes]
rs4946967	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs4946970	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4946976	0.90[EUR][1000 genomes]
rs58644322	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59597139	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6914216	0.94[EUR][1000 genomes]
rs6920372	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6920712	0.85[YRI][hapmap]
rs6920962	0.92[CHB][hapmap];0.88[YRI][hapmap]
rs6939548	0.88[EUR][1000 genomes]
rs6939953	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs699700	0.94[EUR][1000 genomes]
rs730089	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs736830	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs746794	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7748669	0.96[CEU][hapmap];0.82[JPT][hapmap];0.92[EUR][1000 genomes]
rs7751582	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7754650	0.96[CEU][hapmap];0.82[JPT][hapmap];0.94[EUR][1000 genomes]
rs7755941	0.87[CEU][hapmap]
rs7768973	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7773950	0.88[CEU][hapmap]
rs8465	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs910730	0.96[CEU][hapmap];0.90[YRI][hapmap];0.91[EUR][1000 genomes]
rs9320286	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9372213	0.81[CEU][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9386799	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9480949	0.93[EUR][1000 genomes]
rs9480956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9480958	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9487064	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9487066	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9487069	0.94[EUR][1000 genomes]
rs9487070	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9487076	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487084	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487085	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487103	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs974034	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9791241	1.00[CEU][hapmap];0.95[YRI][hapmap];0.88[EUR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs9480947	RP11-425D10.10	cis	Whole Blood	GTEx
rs9480947	RP11-425D10.10	cis	Skin Sun Exposed Lower leg	GTEx
rs9480947	SMPD2	cis	Esophagus Mucosa	GTEx
rs9480947	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL
rs9480947	C6orf199	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109705000-109745200	Weak transcription	Fetal Kidney	kidney
2	chr6:109706600-109735800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr6:109706800-109718600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr6:109707000-109755400	Weak transcription	Fetal Intestine Small	intestine
5	chr6:109711800-109725000	Weak transcription	Brain Anterior Caudate	brain
6	chr6:109712800-109736200	Weak transcription	Left Ventricle	heart
7	chr6:109715200-109721600	Weak transcription	K562	blood
8	chr6:109715400-109730400	Weak transcription	Brain Hippocampus Middle	brain
9	chr6:109716200-109723600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:109716600-109719000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:109717000-109718800	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr6:109717200-109718800	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr6:109718000-109721800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:109718400-109718800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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