Variant report

Variant	rs9923644
Chromosome Location	chr16:74578466-74578467
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 88 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10400930	0.80[ASN][1000 genomes]
rs10468356	0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs12445991	0.93[ASN][1000 genomes]
rs12448026	0.92[ASN][1000 genomes]
rs12921903	0.81[ASN][1000 genomes]
rs13339156	0.81[ASN][1000 genomes]
rs1820262	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2550824	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs28377859	0.81[ASN][1000 genomes]
rs28502731	0.80[ASN][1000 genomes]
rs3923201	0.99[ASN][1000 genomes]
rs4302071	0.80[ASN][1000 genomes]
rs4548905	0.80[ASN][1000 genomes]
rs4564599	0.82[ASN][1000 genomes]
rs4600490	0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4887776	0.80[ASN][1000 genomes]
rs4887777	0.80[ASN][1000 genomes]
rs4887779	0.82[ASN][1000 genomes]
rs4888253	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4888258	0.80[ASN][1000 genomes]
rs55960814	0.90[ASN][1000 genomes]
rs62054177	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6564141	0.93[ASN][1000 genomes]
rs6564142	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6564145	0.87[ASN][1000 genomes]
rs6564146	0.82[ASN][1000 genomes]
rs6564147	0.83[ASN][1000 genomes]
rs6564149	0.82[ASN][1000 genomes]
rs6564152	0.84[ASN][1000 genomes]
rs6564153	0.84[ASN][1000 genomes]
rs67414268	0.90[ASN][1000 genomes]
rs71392603	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7184754	0.82[ASN][1000 genomes]
rs7185026	0.96[ASN][1000 genomes]
rs7185722	0.84[ASN][1000 genomes]
rs7193423	0.81[ASN][1000 genomes]
rs7193508	0.81[ASN][1000 genomes]
rs7193583	0.82[ASN][1000 genomes]
rs7193959	0.82[ASN][1000 genomes]
rs7194687	0.82[ASN][1000 genomes]
rs7201105	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7203452	0.94[ASN][1000 genomes]
rs7204804	0.84[ASN][1000 genomes]
rs7205258	0.80[ASN][1000 genomes]
rs7205813	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7359390	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs8046158	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs8047243	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8048239	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8048596	0.80[ASN][1000 genomes]
rs8049138	0.94[ASN][1000 genomes]
rs8050624	0.80[ASN][1000 genomes]
rs8050668	0.96[ASN][1000 genomes]
rs8050850	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8051990	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8052389	0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs8053084	0.82[ASN][1000 genomes]
rs8053369	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8055380	0.83[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs8055803	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8056718	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8057279	0.81[ASN][1000 genomes]
rs8058034	0.80[ASN][1000 genomes]
rs8058256	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8058437	0.86[ASN][1000 genomes]
rs8058692	0.98[ASN][1000 genomes]
rs8062404	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8062959	0.81[ASN][1000 genomes]
rs9888950	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9888968	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9888976	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9928181	0.80[ASN][1000 genomes]
rs9929933	0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9930003	0.99[ASN][1000 genomes]
rs9936239	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9938859	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948443	chr16:73994997-74627711	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv916687	chr16:74241238-74896721	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	102 gene(s)	inside rSNPs	diseases
3	esv2758431	chr16:74334780-74587185	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats 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
4	esv2758656	chr16:74334780-74587185	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv428806	chr16:74394226-74580125	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv833278	chr16:74415944-74584123	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv949374	chr16:74466960-75172358	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
8	nsv1060629	chr16:74483574-74660669	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
9	nsv1062517	chr16:74483574-74710623	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
10	nsv833279	chr16:74490746-74663073	Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
11	nsv1061095	chr16:74519718-75407020	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
12	nsv906905	chr16:74527618-74679244	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs9923644	MLKL	Cis_1M	lymphoblastoid	RTeQTL
rs9923644	RFWD3	cis	Skin Sun Exposed Lower leg	GTEx
rs9923644	RFWD3	cis	Esophagus Mucosa	GTEx
rs9923644	RFWD3	Cis_1M	lymphoblastoid	RTeQTL
rs9923644	RFWD3	cis	Thyroid	GTEx

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:74537600-74579800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr16:74537600-74604800	Weak transcription	Thymus	Thymus
3	chr16:74539200-74581600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr16:74540000-74579800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr16:74542800-74590400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr16:74552600-74580000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr16:74555000-74582200	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr16:74556400-74595600	Weak transcription	NH-A	brain
9	chr16:74559200-74594000	Weak transcription	Ovary	ovary
10	chr16:74559400-74591200	Weak transcription	Primary T cells from cord blood	blood
11	chr16:74563200-74598000	Weak transcription	Fetal Intestine Small	intestine
12	chr16:74563200-74622400	Weak transcription	Fetal Stomach	stomach
13	chr16:74565000-74597000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr16:74565600-74597000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr16:74569000-74581600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr16:74569600-74581800	Weak transcription	Psoas Muscle	Psoas
17	chr16:74569800-74580000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr16:74574200-74578600	Enhancers	Liver	Liver
19	chr16:74575200-74580800	Weak transcription	K562	blood
20	chr16:74577200-74578600	Enhancers	Primary T helper cells PMA-I stimulated	--
21	chr16:74577200-74580200	Enhancers	HepG2	liver
22	chr16:74577400-74579600	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr16:74577800-74578600	Enhancers	Primary T helper cells fromperipheralblood	blood
24	chr16:74578200-74578600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr16:74578200-74578600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
26	chr16:74578200-74578600	Enhancers	Pancreas	Pancrea
27	chr16:74578200-74578600	Enhancers	Sigmoid Colon	Sigmoid Colon
28	chr16:74578200-74578800	Enhancers	Primary T cells fromperipheralblood	blood
29	chr16:74578400-74591200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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