Variant report

Variant	rs16890376
Chromosome Location	chr6:38084897-38084898
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11751393	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752354	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11753390	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11753809	0.85[ASN][1000 genomes]
rs11755262	0.85[ASN][1000 genomes]
rs11755592	1.00[CEU][hapmap]
rs11755824	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757371	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11757622	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11759754	0.85[ASN][1000 genomes]
rs13552	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16890395	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17648097	0.85[ASN][1000 genomes]
rs17648634	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17648699	0.85[ASN][1000 genomes]
rs17649606	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17649630	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2036124	1.00[CEU][hapmap]
rs2842505	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs55898002	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56100831	0.85[ASN][1000 genomes]
rs56136126	0.85[ASN][1000 genomes]
rs59522592	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59810748	0.85[ASN][1000 genomes]
rs61521259	0.85[ASN][1000 genomes]
rs61705055	0.85[ASN][1000 genomes]
rs68148876	0.85[ASN][1000 genomes]
rs6925259	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6930340	0.85[ASN][1000 genomes]
rs72850806	0.85[ASN][1000 genomes]
rs72850831	0.85[ASN][1000 genomes]
rs72850855	0.85[ASN][1000 genomes]
rs72850856	0.85[ASN][1000 genomes]
rs72850871	0.85[ASN][1000 genomes]
rs72852516	0.85[ASN][1000 genomes]
rs72852536	0.85[ASN][1000 genomes]
rs72852555	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72852565	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72852588	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739801	1.00[CEU][hapmap]
rs994530	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	esv2754649	chr6:37985025-38147910	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38030800-38085800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr6:38045600-38107000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr6:38053000-38090400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr6:38057200-38109200	Weak transcription	K562	blood
5	chr6:38059800-38091600	Weak transcription	Spleen	Spleen
6	chr6:38060000-38092000	Weak transcription	Aorta	Aorta
7	chr6:38060000-38099400	Weak transcription	Right Ventricle	heart
8	chr6:38060000-38108200	Weak transcription	Ovary	ovary
9	chr6:38063400-38085600	Weak transcription	A549	lung
10	chr6:38063800-38099000	Weak transcription	NH-A	brain
11	chr6:38071800-38091400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr6:38072000-38085400	Weak transcription	GM12878-XiMat	blood
13	chr6:38072200-38108400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr6:38074200-38086000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:38074600-38085800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr6:38074600-38086000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr6:38075200-38092000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr6:38075200-38118200	Weak transcription	Colonic Mucosa	Colon
19	chr6:38075400-38103800	Weak transcription	Pancreas	Pancrea
20	chr6:38076400-38091400	Strong transcription	Primary B cells from cord blood	blood
21	chr6:38076600-38085600	Weak transcription	Gastric	stomach
22	chr6:38076600-38104000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:38078800-38085600	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr6:38078800-38086000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr6:38078800-38086400	Weak transcription	Brain Substantia Nigra	brain
26	chr6:38078800-38086600	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr6:38078800-38087400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr6:38078800-38099000	Weak transcription	NHDF-Ad	bronchial
29	chr6:38078800-38109000	Weak transcription	Rectal Smooth Muscle	rectum
30	chr6:38078800-38111000	Weak transcription	Fetal Kidney	kidney
31	chr6:38078800-38111000	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr6:38079000-38086000	Weak transcription	Brain Cingulate Gyrus	brain
33	chr6:38079400-38085400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr6:38079600-38113800	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr6:38079800-38086200	Weak transcription	Brain Hippocampus Middle	brain
36	chr6:38079800-38088600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr6:38080400-38085600	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr6:38080400-38086600	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr6:38080400-38104800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr6:38081400-38087000	Weak transcription	Fetal Brain Female	brain
41	chr6:38081800-38121800	Weak transcription	Psoas Muscle	Psoas
42	chr6:38082200-38085200	Enhancers	HMEC	breast
43	chr6:38082200-38086400	Weak transcription	Brain Anterior Caudate	brain
44	chr6:38082400-38086000	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr6:38082400-38086800	Weak transcription	Brain Germinal Matrix	brain
46	chr6:38082400-38087200	Weak transcription	Fetal Brain Male	brain
47	chr6:38082600-38094400	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr6:38082800-38087600	Weak transcription	HSMMtube	muscle
49	chr6:38082800-38091600	Strong transcription	Primary T cells from cord blood	blood
50	chr6:38083000-38086200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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