Variant report

Variant	rs13356232
Chromosome Location	chr5:43622444-43622445
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:43483460..43485178-chr5:43620815..43623103,2	K562	blood:
2	chr5:43607312..43608856-chr5:43620931..43623361,2	K562	blood:
3	chr5:43613880..43616676-chr5:43619448..43622710,3	K562	blood:
4	chr5:43612438..43616044-chr5:43620469..43623646,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000249492	Chromatin interaction
ENSG00000151881	Chromatin interaction
ENSG00000112992	Chromatin interaction

Extended variants
information (count: 149 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:146)

rs_ID	r²[population]
rs10042852	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10055801	0.81[YRI][hapmap]
rs10058080	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10068064	0.82[YRI][hapmap]
rs10068765	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10074229	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10077102	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10461740	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs10461741	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10461743	0.94[ASN][1000 genomes]
rs10461744	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10462052	0.94[ASN][1000 genomes]
rs10462053	0.94[ASN][1000 genomes]
rs10462054	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10941642	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs12654258	0.92[ASN][1000 genomes]
rs12656650	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs12657635	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs12657724	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs12659627	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs13155888	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs13158796	0.94[ASN][1000 genomes]
rs13160431	1.00[JPT][hapmap]
rs13161149	0.91[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs13161298	0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs13161838	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13165869	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs13166593	0.84[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs13168053	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs13170672	0.90[ASN][1000 genomes]
rs13173498	0.90[ASN][1000 genomes]
rs13173517	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs13175688	0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs13177107	0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs13181483	0.90[ASN][1000 genomes]
rs13183122	0.90[ASN][1000 genomes]
rs13186372	0.94[ASN][1000 genomes]
rs13187073	0.92[ASN][1000 genomes]
rs13187313	0.94[ASN][1000 genomes]
rs13188640	0.82[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs13188683	0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs13189630	0.90[ASN][1000 genomes]
rs1469436	0.90[ASN][1000 genomes]
rs16873404	0.92[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs16873421	0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs16873432	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16873433	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs16873435	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16873438	1.00[CEU][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16873443	0.90[ASN][1000 genomes]
rs16873454	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs16873455	0.90[ASN][1000 genomes]
rs16873466	0.90[ASN][1000 genomes]
rs2042950	0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2131998	0.82[YRI][hapmap]
rs34076603	0.94[ASN][1000 genomes]
rs34079397	0.90[ASN][1000 genomes]
rs34153332	0.98[ASN][1000 genomes]
rs34225966	0.94[ASN][1000 genomes]
rs34307136	0.90[ASN][1000 genomes]
rs34330393	0.98[ASN][1000 genomes]
rs34361701	0.90[ASN][1000 genomes]
rs34361740	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34369923	0.94[ASN][1000 genomes]
rs34577568	0.98[ASN][1000 genomes]
rs34753533	0.94[ASN][1000 genomes]
rs34760245	0.94[ASN][1000 genomes]
rs34784550	0.94[ASN][1000 genomes]
rs34985223	0.90[ASN][1000 genomes]
rs35023717	0.82[ASN][1000 genomes]
rs35069805	0.94[ASN][1000 genomes]
rs35141665	0.90[ASN][1000 genomes]
rs35201656	0.94[ASN][1000 genomes]
rs35370110	0.90[ASN][1000 genomes]
rs35393262	0.89[ASN][1000 genomes]
rs35493041	0.92[ASN][1000 genomes]
rs35768478	0.94[ASN][1000 genomes]
rs35773835	0.98[ASN][1000 genomes]
rs35826690	0.94[ASN][1000 genomes]
rs35910245	0.90[ASN][1000 genomes]
rs35979310	0.94[ASN][1000 genomes]
rs3764979	0.94[ASN][1000 genomes]
rs3764980	0.82[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs3792915	0.98[ASN][1000 genomes]
rs3792916	0.98[ASN][1000 genomes]
rs3792917	0.92[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3792918	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3792921	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3792922	0.90[ASN][1000 genomes]
rs3805720	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3805721	0.84[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3805722	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3805723	0.90[ASN][1000 genomes]
rs3828695	0.84[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4072918	0.81[YRI][hapmap]
rs4072919	0.81[YRI][hapmap]
rs4074777	0.81[YRI][hapmap]
rs41271083	0.90[ASN][1000 genomes]
rs4386738	0.81[YRI][hapmap]
rs4533897	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs62367607	0.94[ASN][1000 genomes]
rs62367633	0.88[ASN][1000 genomes]
rs62367649	0.90[ASN][1000 genomes]
rs62367650	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62367651	0.90[ASN][1000 genomes]
rs62367653	0.85[ASN][1000 genomes]
rs62368560	0.87[EUR][1000 genomes]
rs62368561	0.90[ASN][1000 genomes]
rs62368564	0.90[ASN][1000 genomes]
rs62368566	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62368567	0.90[ASN][1000 genomes]
rs62368570	0.90[ASN][1000 genomes]
rs62368571	0.90[ASN][1000 genomes]
rs62368594	0.86[EUR][1000 genomes]
rs6451697	0.82[YRI][hapmap]
rs6451699	0.82[YRI][hapmap]
rs6451705	0.81[YRI][hapmap]
rs6451719	0.82[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs6451720	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6862487	0.92[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs6863699	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6868763	0.82[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs6875118	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6878770	0.81[YRI][hapmap]
rs6885679	0.81[YRI][hapmap]
rs6889653	1.00[JPT][hapmap]
rs6890108	1.00[JPT][hapmap]
rs6893250	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6895327	0.81[YRI][hapmap]
rs6896693	0.81[YRI][hapmap]
rs6896932	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6898436	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71590644	0.94[ASN][1000 genomes]
rs71590645	0.94[ASN][1000 genomes]
rs71629182	0.94[ASN][1000 genomes]
rs71629184	0.90[ASN][1000 genomes]
rs71629185	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71629186	0.90[ASN][1000 genomes]
rs71629187	0.90[ASN][1000 genomes]
rs7710628	0.81[YRI][hapmap]
rs7713458	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7713749	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7716562	0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7718627	0.81[YRI][hapmap]
rs7736108	0.82[YRI][hapmap]
rs7737947	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881017	chr5:43444826-43731692	Weak transcription Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	222 gene(s)	inside rSNPs	diseases
2	nsv830275	chr5:43469511-43639384	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription 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 miRNA target site	220 gene(s)	inside rSNPs	diseases
3	nsv881108	chr5:43527432-43800333	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13356232	NNT	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:43604200-43631200	Weak transcription	A549	lung
2	chr5:43604400-43631200	Weak transcription	Pancreas	Pancrea
3	chr5:43604400-43635000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr5:43604400-43649200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr5:43604400-43649200	Weak transcription	Esophagus	oesophagus
6	chr5:43604400-43660600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:43604600-43624400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr5:43604600-43649800	Weak transcription	Colonic Mucosa	Colon
9	chr5:43604800-43630200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr5:43604800-43630800	Weak transcription	Rectal Smooth Muscle	rectum
11	chr5:43604800-43635400	Weak transcription	Gastric	stomach
12	chr5:43604800-43635400	Weak transcription	Spleen	Spleen
13	chr5:43604800-43649800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr5:43605000-43631200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr5:43605000-43631400	Weak transcription	Lung	lung
16	chr5:43605000-43656000	Weak transcription	Small Intestine	intestine
17	chr5:43605800-43625200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr5:43606400-43633600	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr5:43606800-43648200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr5:43607800-43624200	Strong transcription	Primary T cells from cord blood	blood
21	chr5:43607800-43628200	Weak transcription	Fetal Intestine Small	intestine
22	chr5:43608400-43624600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr5:43608400-43633600	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr5:43608400-43640600	Strong transcription	Dnd41	blood
25	chr5:43608600-43624200	Strong transcription	Primary T helper cells fromperipheralblood	blood
26	chr5:43608600-43624400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr5:43608600-43624600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr5:43608600-43624600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr5:43608800-43624800	Strong transcription	Fetal Thymus	thymus
30	chr5:43610600-43627000	Weak transcription	Right Ventricle	heart
31	chr5:43610600-43632200	Weak transcription	NHLF	lung
32	chr5:43610800-43649400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr5:43612400-43622600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr5:43612600-43622600	Weak transcription	Brain Angular Gyrus	brain
35	chr5:43612600-43649400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr5:43612800-43647400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
37	chr5:43613200-43635400	Weak transcription	Aorta	Aorta
38	chr5:43613400-43645400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr5:43613800-43632600	Weak transcription	Ovary	ovary
40	chr5:43613800-43635400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr5:43613800-43646200	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr5:43614000-43623000	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr5:43614000-43623200	Weak transcription	Brain Substantia Nigra	brain
44	chr5:43614000-43635600	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr5:43614000-43647600	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr5:43614200-43631400	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr5:43614800-43631200	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr5:43615400-43624200	Strong transcription	Fetal Muscle Leg	muscle
49	chr5:43616000-43648200	Weak transcription	HepG2	liver
50	chr5:43616200-43628200	Weak transcription	Colon Smooth Muscle	Colon

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