Variant report

Variant	rs943027
Chromosome Location	chr10:4005259-4005260
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:3826047..3829382-chr10:4003053..4005347,3	MCF-7	breast:
2	chr10:3998313..4000642-chr10:4003967..4005833,2	K562	blood:
3	chr10:3998272..4000817-chr10:4003234..4005418,4	MCF-7	breast:
4	chr10:3826407..3828604-chr10:4003074..4005600,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PFKP-16	chr10:4005215-4005316	XLOC_008357

Variant related genes	Relation type
ENSG00000067082	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10751946	0.83[EUR][1000 genomes]
rs10751947	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10751948	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10751949	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10751950	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10751951	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10795105	0.85[CEU][hapmap];0.82[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10795106	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10795107	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10795108	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10795109	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10795110	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10795111	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10795112	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10795113	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10795114	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10904149	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10904151	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10904152	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10904154	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10904155	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10904156	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10904157	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10904158	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10904159	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10904160	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10904161	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10904162	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11252211	0.82[ASN][1000 genomes]
rs11252221	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11252224	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11252225	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11252229	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11598382	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11599424	0.82[AMR][1000 genomes]
rs12268528	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12570958	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12571162	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12781474	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2031579	0.88[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35108768	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4607962	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4881261	0.89[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4881262	0.84[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4881263	0.89[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4881264	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4881265	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4881266	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4881269	0.82[AMR][1000 genomes]
rs6601787	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6601790	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67630759	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7074793	0.82[ASN][1000 genomes]
rs7079128	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7079341	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7089266	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7089590	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7094696	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7096204	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7894640	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7896628	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7897103	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7910684	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7917286	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7918069	0.88[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043680	chr10:3551191-4038002	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv1051297	chr10:3908706-4277678	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
3	nsv894784	chr10:3985194-4051081	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Genic enhancers	Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv5609	chr10:4002849-4040114	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4001200-4006000	Enhancers	Primary T cells fromperipheralblood	blood
2	chr10:4001200-4006200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
3	chr10:4002200-4005600	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr10:4002200-4022000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr10:4002400-4005400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr10:4002400-4005400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr10:4002400-4005400	Weak transcription	NHEK	skin
8	chr10:4003800-4005400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr10:4004000-4011000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr10:4004200-4006400	Enhancers	Dnd41	blood
11	chr10:4004200-4007600	Enhancers	Rectal Mucosa Donor 29	rectum
12	chr10:4004200-4011000	Weak transcription	Primary T cells from cord blood	blood
13	chr10:4004200-4011000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr10:4004800-4006000	Enhancers	Fetal Thymus	thymus
15	chr10:4005000-4007400	Enhancers	Stomach Mucosa	stomach
16	chr10:4005000-4007600	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr10:4005200-4005600	Flanking Active TSS	Duodenum Mucosa	Duodenum
18	chr10:4005200-4005600	Enhancers	Esophagus	oesophagus
19	chr10:4005200-4005600	Enhancers	Fetal Intestine Small	intestine
20	chr10:4005200-4005600	Enhancers	Small Intestine	intestine
21	chr10:4005200-4005800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
22	chr10:4005200-4006000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr10:4005200-4006600	Enhancers	Placenta Amnion	Placenta Amnion

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