Variant report

Variant	rs10936607
Chromosome Location	chr3:101126327-101126328
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1019677	0.90[EUR][1000 genomes]
rs10936642	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10936664	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12491955	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12496260	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13087404	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13089177	0.81[ASN][1000 genomes]
rs13089552	0.86[ASN][1000 genomes]
rs13320918	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13322987	0.95[EUR][1000 genomes]
rs16843927	0.96[EUR][1000 genomes]
rs1918405	0.90[EUR][1000 genomes]
rs2141179	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2141180	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2178036	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2250611	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2317699	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2317700	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2317745	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2317749	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2317751	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2433031	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553416	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553424	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2553427	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2682383	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2682384	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2682386	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2682390	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2682391	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28460520	0.81[EUR][1000 genomes]
rs28565548	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34255148	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs348866	0.83[ASN][1000 genomes]
rs348869	0.84[ASN][1000 genomes]
rs3846091	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4287896	0.90[EUR][1000 genomes]
rs4456838	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4524254	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4683899	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683900	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683917	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4683918	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs473702	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs497953	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs503734	0.89[ASN][1000 genomes]
rs508537	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs520558	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs533852	0.84[ASN][1000 genomes]
rs551442	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56075912	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62280667	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441602	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441608	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6441610	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6771561	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6772703	0.94[EUR][1000 genomes]
rs6773536	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7628681	0.90[EUR][1000 genomes]
rs7631506	0.95[EUR][1000 genomes]
rs7636475	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9814991	0.91[EUR][1000 genomes]
rs9843186	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9856435	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9859077	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9870114	0.81[ASN][1000 genomes]
rs9874188	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931417	chr3:100547347-101183844	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv3439278	chr3:100936513-101162102	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10936607	SENP7	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101085600-101137600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:101106800-101133000	Weak transcription	Left Ventricle	heart
3	chr3:101106800-101133000	Weak transcription	Pancreas	Pancrea
4	chr3:101106800-101133000	Weak transcription	Spleen	Spleen
5	chr3:101107000-101140800	Weak transcription	Esophagus	oesophagus
6	chr3:101107200-101133000	Weak transcription	Gastric	stomach
7	chr3:101107200-101133000	Weak transcription	Thymus	Thymus
8	chr3:101107200-101161200	Weak transcription	Aorta	Aorta
9	chr3:101108600-101138000	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr3:101109400-101133600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr3:101109800-101127000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr3:101110800-101132400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr3:101111600-101138000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr3:101111600-101145800	Weak transcription	Rectal Smooth Muscle	rectum
15	chr3:101111800-101134800	Weak transcription	Stomach Smooth Muscle	stomach
16	chr3:101114600-101133000	Weak transcription	Fetal Thymus	thymus
17	chr3:101114600-101134800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr3:101115200-101133000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr3:101117000-101127200	Weak transcription	Dnd41	blood
20	chr3:101117000-101129200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr3:101117000-101132800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr3:101117600-101130800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr3:101118000-101133000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr3:101119600-101127000	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr3:101120000-101133400	Weak transcription	Ovary	ovary
26	chr3:101120000-101142400	Weak transcription	Fetal Stomach	stomach
27	chr3:101122000-101127000	Weak transcription	Primary T cells from cord blood	blood
28	chr3:101124200-101133000	Weak transcription	Lung	lung
29	chr3:101124200-101133000	Weak transcription	Psoas Muscle	Psoas
30	chr3:101124200-101140800	Weak transcription	Fetal Intestine Small	intestine
31	chr3:101124400-101126600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr3:101125400-101129400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr3:101125600-101126600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
34	chr3:101125800-101126600	ZNF genes & repeats	Primary B cells from cord blood	blood
35	chr3:101126000-101128400	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
36	chr3:101126200-101126600	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
37	chr3:101126200-101127400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin

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