Variant report

Variant	rs9596159
Chromosome Location	chr13:50182752-50182753
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:50182731..50184724-chr13:50185681..50187681,2	K562	blood:
2	chr13:50071647..50073472-chr13:50180377..50183221,3	MCF-7	breast:

Extended variants
information (count: 128 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs11616920	0.94[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs12017701	0.88[EUR][1000 genomes]
rs12428474	0.88[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs12583946	0.88[EUR][1000 genomes]
rs12585072	0.94[CEU][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes]
rs12585079	0.84[EUR][1000 genomes]
rs17069328	0.94[CEU][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes]
rs17073145	0.94[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs17073150	0.94[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs1830629	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2002407	0.85[EUR][1000 genomes]
rs2274279	0.88[EUR][1000 genomes]
rs2274280	0.88[EUR][1000 genomes]
rs2274281	0.94[CEU][hapmap];0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs2274282	0.94[CEU][hapmap];0.83[JPT][hapmap]
rs2274283	0.88[EUR][1000 genomes]
rs2407793	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2407794	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2897768	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3751381	0.94[CEU][hapmap];0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs3751382	0.86[EUR][1000 genomes]
rs3751383	0.94[CEU][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes]
rs3764082	0.88[EUR][1000 genomes]
rs4344626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4595700	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56250426	0.88[EUR][1000 genomes]
rs56744999	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59416746	0.88[EUR][1000 genomes]
rs61961364	0.88[EUR][1000 genomes]
rs6561546	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561547	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561548	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6561549	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66897547	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs67275254	0.88[EUR][1000 genomes]
rs7140107	0.86[EUR][1000 genomes]
rs7320475	0.88[EUR][1000 genomes]
rs7325667	0.94[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs7327293	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7328126	0.88[EUR][1000 genomes]
rs7328536	0.94[CEU][hapmap];0.82[JPT][hapmap];0.88[EUR][1000 genomes]
rs7328860	0.94[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs7331252	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7332484	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7332771	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7332926	0.89[CEU][hapmap]
rs7334012	0.89[CEU][hapmap]
rs7336758	0.88[EUR][1000 genomes]
rs7337705	0.87[EUR][1000 genomes]
rs7338090	0.94[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs7339079	0.84[EUR][1000 genomes]
rs7981952	0.88[EUR][1000 genomes]
rs7983030	0.94[CEU][hapmap];0.88[JPT][hapmap];0.88[EUR][1000 genomes]
rs7983672	0.83[EUR][1000 genomes]
rs7986417	0.94[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs7987338	0.88[EUR][1000 genomes]
rs7987806	0.94[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs7987956	0.88[EUR][1000 genomes]
rs7988350	0.87[EUR][1000 genomes]
rs7988844	0.87[EUR][1000 genomes]
rs7989915	0.94[CEU][hapmap];0.82[JPT][hapmap];0.88[EUR][1000 genomes]
rs7990896	0.85[EUR][1000 genomes]
rs8001878	0.88[EUR][1000 genomes]
rs9562893	0.84[EUR][1000 genomes]
rs9562894	0.85[EUR][1000 genomes]
rs9562897	0.88[EUR][1000 genomes]
rs9562898	0.88[EUR][1000 genomes]
rs9562899	0.94[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs9562900	0.94[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs9568243	0.88[EUR][1000 genomes]
rs9568246	0.94[CEU][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes]
rs9568247	0.94[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs9568248	0.88[EUR][1000 genomes]
rs9568249	0.88[EUR][1000 genomes]
rs9568250	0.85[EUR][1000 genomes]
rs9568251	0.94[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs9568252	0.94[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs9568253	0.94[CEU][hapmap];0.82[JPT][hapmap];0.88[EUR][1000 genomes]
rs9568254	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs9568255	0.88[EUR][1000 genomes]
rs9568256	0.94[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs9568257	0.94[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs9568258	0.94[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs9568259	0.88[EUR][1000 genomes]
rs9568260	0.88[EUR][1000 genomes]
rs9568265	0.88[EUR][1000 genomes]
rs9568266	0.85[EUR][1000 genomes]
rs9568270	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568272	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568274	0.88[JPT][hapmap]
rs9568275	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568276	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568277	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568279	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568280	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568282	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568283	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568288	0.91[EUR][1000 genomes]
rs9568289	0.89[EUR][1000 genomes]
rs9596139	0.88[EUR][1000 genomes]
rs9596140	0.88[EUR][1000 genomes]
rs9596141	0.88[EUR][1000 genomes]
rs9596142	0.94[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs9596143	0.88[EUR][1000 genomes]
rs9596144	0.88[EUR][1000 genomes]
rs9596145	0.88[EUR][1000 genomes]
rs9596148	0.94[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs9596150	0.94[CEU][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs9596151	0.94[CEU][hapmap];0.82[JPT][hapmap];0.88[EUR][1000 genomes]
rs9596152	0.88[EUR][1000 genomes]
rs9596160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047311	chr13:49895019-50224227	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv916093	chr13:50050919-50290245	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1036135	chr13:50071310-50183103	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv541770	chr13:50071310-50183103	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv1054965	chr13:50102730-50251347	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
6	nsv541771	chr13:50102730-50251347	Enhancers Active TSS Genic enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
7	esv2763020	chr13:50105055-50192259	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv900071	chr13:50107289-50286218	Weak transcription Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
9	nsv561616	chr13:50120435-50190246	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
10	nsv949162	chr13:50120985-50195882	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	nsv1046912	chr13:50122840-50189313	Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
12	nsv1043902	chr13:50122840-50189999	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
13	esv2761789	chr13:50122852-50185910	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
14	nsv455883	chr13:50124621-50185204	Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
15	nsv561617	chr13:50124621-50185204	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
16	nsv1043697	chr13:50129199-50249241	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
17	esv2752657	chr13:50144995-50244150	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9596159	KPNA3	Cis_1M	lymphoblastoid	RTeQTL
rs9596159	RCBTB1	cis	Whole Blood	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50180800-50183200	Enhancers	Primary B cells from peripheral blood	blood
2	chr13:50181000-50185800	Enhancers	Fetal Heart	heart
3	chr13:50181200-50192000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr13:50181400-50183200	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr13:50181400-50183400	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr13:50181400-50183600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr13:50181400-50183600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr13:50181400-50183800	Enhancers	Primary B cells from cord blood	blood
9	chr13:50181400-50183800	Enhancers	Primary hematopoietic stem cells	blood
10	chr13:50181400-50185400	Weak transcription	HepG2	liver
11	chr13:50181400-50194400	Weak transcription	Right Ventricle	heart
12	chr13:50182000-50184200	Weak transcription	Fetal Muscle Leg	muscle
13	chr13:50182200-50183000	Weak transcription	GM12878-XiMat	blood
14	chr13:50182200-50183800	Enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr13:50182400-50183200	Enhancers	Monocytes-CD14+_RO01746	blood

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