Variant report

Variant	rs6541076
Chromosome Location	chr1:10100891-10100892
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs7414481	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[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	esv3417409	chr1:9683992-10241703	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv1012469	chr1:9925714-10147796	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv1012301	chr1:9963962-10118393	Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv534853	chr1:9963962-10118393	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	nsv1001742	chr1:9971776-10116767	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
6	nsv527217	chr1:10093457-10257167	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6541076	LZIC	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:10094000-10102800	Weak transcription	Pancreas	Pancrea
2	chr1:10094000-10104200	Weak transcription	Gastric	stomach
3	chr1:10094600-10106000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr1:10094800-10105000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr1:10094800-10105200	Weak transcription	Right Ventricle	heart
6	chr1:10094800-10105200	Weak transcription	Small Intestine	intestine
7	chr1:10094800-10106000	Weak transcription	Colonic Mucosa	Colon
8	chr1:10094800-10106200	Weak transcription	Stomach Mucosa	stomach
9	chr1:10094800-10119400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr1:10095000-10102200	Weak transcription	Fetal Kidney	kidney
11	chr1:10095000-10102600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr1:10095000-10104400	Weak transcription	Brain Anterior Caudate	brain
13	chr1:10095000-10104400	Weak transcription	Brain Cingulate Gyrus	brain
14	chr1:10095000-10104400	Weak transcription	Esophagus	oesophagus
15	chr1:10095000-10104600	Weak transcription	Brain Angular Gyrus	brain
16	chr1:10095000-10104600	Weak transcription	Fetal Heart	heart
17	chr1:10095000-10105200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr1:10095000-10105200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr1:10095000-10105200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr1:10095000-10105200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr1:10095000-10105200	Weak transcription	Brain Germinal Matrix	brain
22	chr1:10095000-10105200	Weak transcription	Right Atrium	heart
23	chr1:10095000-10105400	Weak transcription	Rectal Smooth Muscle	rectum
24	chr1:10095000-10105800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr1:10095000-10106000	Weak transcription	NHDF-Ad	bronchial
26	chr1:10095000-10106200	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr1:10095000-10106200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr1:10095000-10108000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr1:10095000-10111400	Weak transcription	GM12878-XiMat	blood
30	chr1:10095000-10115000	Weak transcription	A549	lung
31	chr1:10095000-10115400	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr1:10095000-10116000	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr1:10095000-10116200	Weak transcription	HSMM	muscle
34	chr1:10095000-10127800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr1:10095000-10147600	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr1:10095200-10101200	Weak transcription	Fetal Brain Female	brain
37	chr1:10095200-10105000	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr1:10095200-10105200	Weak transcription	Fetal Brain Male	brain
39	chr1:10095200-10106000	Weak transcription	NHEK	skin
40	chr1:10095200-10106200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr1:10095200-10134400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr1:10095400-10102600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr1:10095400-10105000	Weak transcription	Psoas Muscle	Psoas
44	chr1:10095400-10105600	Weak transcription	Aorta	Aorta
45	chr1:10095400-10115600	Weak transcription	HUVEC	blood vessel
46	chr1:10095600-10101600	Weak transcription	Thymus	Thymus
47	chr1:10095600-10105800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr1:10096200-10101600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr1:10096200-10103000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr1:10096200-10103000	Strong transcription	Fetal Thymus	thymus

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