Variant report

Variant	rs7541780
Chromosome Location	chr1:10195606-10195607
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:10194866..10197025-chr1:10199036..10201040,2	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11121521	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12070814	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4415569	0.99[ASN][1000 genomes]
rs61782920	0.99[ASN][1000 genomes]
rs61782922	0.99[ASN][1000 genomes]
rs61782923	0.99[ASN][1000 genomes]
rs6673887	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6685910	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6687550	0.99[ASN][1000 genomes]
rs6688779	0.99[ASN][1000 genomes]
rs6691957	0.99[ASN][1000 genomes]
rs7538883	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[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	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	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
3	nsv522629	chr1:10125765-10239197	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7541780	LZIC	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:10145800-10197000	Weak transcription	Stomach Mucosa	stomach
2	chr1:10163400-10219000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr1:10164000-10227400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr1:10167600-10207400	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr1:10173000-10199400	Strong transcription	Primary T cells fromperipheralblood	blood
6	chr1:10175000-10207200	Strong transcription	Primary T helper cells fromperipheralblood	blood
7	chr1:10180000-10211200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr1:10181000-10199600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr1:10182200-10231200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr1:10182400-10229400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr1:10182800-10211400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr1:10182800-10221000	Weak transcription	Fetal Brain Male	brain
13	chr1:10182800-10231400	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr1:10184000-10235000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr1:10185000-10201800	Strong transcription	HUES48 Cell Line	embryonic stem cell
16	chr1:10185200-10199200	Strong transcription	Duodenum Mucosa	Duodenum
17	chr1:10185200-10201200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr1:10185400-10204400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr1:10185400-10207400	Strong transcription	Adipose Nuclei	Adipose
20	chr1:10185800-10211400	Weak transcription	A549	lung
21	chr1:10186000-10205800	Strong transcription	Primary monocytes fromperipheralblood	blood
22	chr1:10186200-10207800	Strong transcription	Fetal Intestine Large	intestine
23	chr1:10186400-10197800	Strong transcription	Primary T cells from cord blood	blood
24	chr1:10186400-10199400	Strong transcription	Fetal Muscle Leg	muscle
25	chr1:10186400-10207400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr1:10186600-10197600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr1:10186600-10197800	Strong transcription	Primary neutrophils fromperipheralblood	blood
28	chr1:10186600-10204200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr1:10186600-10207200	Strong transcription	Liver	Liver
30	chr1:10186600-10207800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr1:10186600-10207800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr1:10186800-10198800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
33	chr1:10186800-10201800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr1:10186800-10202000	Strong transcription	HUES64 Cell Line	embryonic stem cell
35	chr1:10187000-10197800	Strong transcription	H9 Cell Line	embryonic stem cell
36	chr1:10187000-10197800	Strong transcription	Thymus	Thymus
37	chr1:10187000-10201600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr1:10187200-10198000	Strong transcription	Skeletal Muscle Female	skeletal muscle
39	chr1:10187400-10197600	Strong transcription	Fetal Thymus	thymus
40	chr1:10187600-10197800	Strong transcription	Stomach Smooth Muscle	stomach
41	chr1:10187600-10202000	Strong transcription	Placenta	Placenta
42	chr1:10187800-10197800	Strong transcription	H1 Cell Line	embryonic stem cell
43	chr1:10188000-10198000	Strong transcription	Fetal Muscle Trunk	muscle
44	chr1:10188000-10200000	Strong transcription	Fetal Brain Female	brain
45	chr1:10188200-10198000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr1:10188200-10198000	Strong transcription	Duodenum Smooth Muscle	Duodenum
47	chr1:10188200-10199600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr1:10188400-10197800	Strong transcription	Spleen	Spleen
49	chr1:10188400-10200200	Strong transcription	Fetal Intestine Small	intestine
50	chr1:10188400-10208200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood

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