Variant report

Variant	rs4645658
Chromosome Location	chr9:100104372-100104373
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 118 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs10115798	0.87[EUR][1000 genomes]
rs10116404	0.83[EUR][1000 genomes]
rs10217329	0.83[EUR][1000 genomes]
rs10435866	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733584	0.82[EUR][1000 genomes]
rs10733603	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10739337	0.84[EUR][1000 genomes]
rs10739365	0.89[EUR][1000 genomes]
rs10759542	0.83[EUR][1000 genomes]
rs10759547	0.82[EUR][1000 genomes]
rs10759605	0.91[EUR][1000 genomes]
rs10759610	0.90[EUR][1000 genomes]
rs10759619	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10759643	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10817300	0.83[EUR][1000 genomes]
rs10817306	0.84[EUR][1000 genomes]
rs10817361	0.89[EUR][1000 genomes]
rs10817448	0.95[EUR][1000 genomes]
rs10817492	0.93[EUR][1000 genomes]
rs10817513	0.91[EUR][1000 genomes]
rs10817515	0.91[EUR][1000 genomes]
rs10981362	0.86[EUR][1000 genomes]
rs10981528	0.91[EUR][1000 genomes]
rs10981537	0.91[EUR][1000 genomes]
rs10981551	0.92[EUR][1000 genomes]
rs10981557	0.92[EUR][1000 genomes]
rs10981560	0.88[EUR][1000 genomes]
rs10981625	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981676	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10981848	0.93[EUR][1000 genomes]
rs10981851	0.93[EUR][1000 genomes]
rs10981889	0.91[EUR][1000 genomes]
rs10981916	0.91[EUR][1000 genomes]
rs12378801	0.93[EUR][1000 genomes]
rs12683119	0.91[EUR][1000 genomes]
rs12683933	0.97[EUR][1000 genomes]
rs1462086	0.99[EUR][1000 genomes]
rs1462087	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1462092	0.91[EUR][1000 genomes]
rs1531439	0.91[EUR][1000 genomes]
rs17331748	0.93[EUR][1000 genomes]
rs1870859	0.93[EUR][1000 genomes]
rs2061634	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2061635	1.00[EUR][1000 genomes]
rs2255135	0.89[EUR][1000 genomes]
rs2255139	0.89[EUR][1000 genomes]
rs2255244	0.89[EUR][1000 genomes]
rs2401382	0.91[EUR][1000 genomes]
rs2447287	0.89[EUR][1000 genomes]
rs2447288	0.91[EUR][1000 genomes]
rs2447289	0.91[EUR][1000 genomes]
rs2447290	0.91[EUR][1000 genomes]
rs2487874	0.89[EUR][1000 genomes]
rs2487875	0.88[EUR][1000 genomes]
rs2502646	0.91[EUR][1000 genomes]
rs2615144	0.91[EUR][1000 genomes]
rs2795363	0.89[EUR][1000 genomes]
rs2795366	0.89[EUR][1000 genomes]
rs2795369	0.89[EUR][1000 genomes]
rs2795370	0.89[EUR][1000 genomes]
rs2818236	0.89[EUR][1000 genomes]
rs2818237	0.89[EUR][1000 genomes]
rs2818240	0.89[EUR][1000 genomes]
rs2818241	0.89[EUR][1000 genomes]
rs2818242	0.91[EUR][1000 genomes]
rs2818244	0.91[EUR][1000 genomes]
rs2859564	0.89[EUR][1000 genomes]
rs2888960	0.84[EUR][1000 genomes]
rs3953688	0.86[EUR][1000 genomes]
rs3994559	0.89[EUR][1000 genomes]
rs3994561	0.89[EUR][1000 genomes]
rs3994562	0.86[EUR][1000 genomes]
rs4345679	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4433262	0.83[EUR][1000 genomes]
rs4437755	0.87[EUR][1000 genomes]
rs4524907	0.85[EUR][1000 genomes]
rs4615708	0.89[EUR][1000 genomes]
rs4742683	0.89[EUR][1000 genomes]
rs4742684	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743067	0.86[EUR][1000 genomes]
rs4743074	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743075	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4743080	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56077563	0.93[EUR][1000 genomes]
rs56306467	0.86[EUR][1000 genomes]
rs6478043	0.87[EUR][1000 genomes]
rs6478044	0.87[EUR][1000 genomes]
rs6478048	0.84[EUR][1000 genomes]
rs6478051	0.87[EUR][1000 genomes]
rs6478054	0.89[EUR][1000 genomes]
rs6478055	0.89[EUR][1000 genomes]
rs6478059	0.88[EUR][1000 genomes]
rs7020002	0.84[EUR][1000 genomes]
rs7023087	0.84[EUR][1000 genomes]
rs7026287	0.84[EUR][1000 genomes]
rs7026893	0.95[EUR][1000 genomes]
rs7029749	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7030698	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7033212	0.87[EUR][1000 genomes]
rs7033480	0.81[EUR][1000 genomes]
rs7033642	0.87[EUR][1000 genomes]
rs7038353	0.84[EUR][1000 genomes]
rs725228	0.91[EUR][1000 genomes]
rs725229	0.91[EUR][1000 genomes]
rs752243	0.92[EUR][1000 genomes]
rs7847332	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7850473	0.87[EUR][1000 genomes]
rs7855385	0.83[EUR][1000 genomes]
rs7855956	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7860264	0.87[EUR][1000 genomes]
rs7867330	0.89[EUR][1000 genomes]
rs7868052	0.84[EUR][1000 genomes]
rs7868295	0.84[EUR][1000 genomes]
rs7875296	0.84[EUR][1000 genomes]
rs9299202	0.83[EUR][1000 genomes]
rs9408859	0.90[EUR][1000 genomes]
rs9409139	0.91[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2762823	chr9:100083872-100105782	Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4645658	CCDC180	cis	Artery Tibial	GTEx
rs4645658	RP11-520B13.4	cis	Esophagus Muscularis	GTEx
rs4645658	RP11-23J9.4	cis	Artery Tibial	GTEx

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100070000-100131400	Weak transcription	Fetal Kidney	kidney
2	chr9:100077000-100106400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr9:100077000-100140800	Weak transcription	Fetal Brain Male	brain
4	chr9:100080400-100126400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr9:100083800-100124000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr9:100086400-100110400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr9:100086600-100121600	Weak transcription	Right Ventricle	heart
8	chr9:100086600-100132000	Weak transcription	Thymus	Thymus
9	chr9:100088000-100126200	Weak transcription	Primary B cells from peripheral blood	blood
10	chr9:100088200-100127000	Weak transcription	Duodenum Mucosa	Duodenum
11	chr9:100088600-100128600	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr9:100088600-100132800	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr9:100088800-100121400	Weak transcription	Gastric	stomach
14	chr9:100089200-100128200	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr9:100090600-100119000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr9:100090600-100133800	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr9:100091200-100106400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr9:100091600-100106400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr9:100091600-100149200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr9:100092000-100105400	Weak transcription	Primary T cells from cord blood	blood
21	chr9:100093000-100105600	Weak transcription	Fetal Lung	lung
22	chr9:100093000-100111000	Weak transcription	Brain Cingulate Gyrus	brain
23	chr9:100093000-100117000	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr9:100093600-100106400	Weak transcription	Left Ventricle	heart
25	chr9:100093600-100122400	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr9:100094600-100109400	Weak transcription	Brain Angular Gyrus	brain
27	chr9:100095200-100105400	Weak transcription	Brain Anterior Caudate	brain
28	chr9:100095600-100116800	Weak transcription	Brain Hippocampus Middle	brain
29	chr9:100095800-100109200	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr9:100096800-100109400	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr9:100097400-100104800	Weak transcription	Stomach Smooth Muscle	stomach
32	chr9:100099000-100132200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr9:100101800-100105800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr9:100102800-100104800	ZNF genes & repeats	Fetal Muscle Leg	muscle
35	chr9:100102800-100104800	ZNF genes & repeats	Fetal Stomach	stomach
36	chr9:100102800-100105000	ZNF genes & repeats	Fetal Intestine Small	intestine
37	chr9:100103200-100106400	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr9:100103800-100104400	ZNF genes & repeats	Spleen	Spleen
39	chr9:100103800-100104600	ZNF genes & repeats	Aorta	Aorta
40	chr9:100103800-100104600	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
41	chr9:100103800-100105200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
42	chr9:100103800-100105200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
43	chr9:100104000-100104400	ZNF genes & repeats	Adipose Nuclei	Adipose
44	chr9:100104000-100104400	ZNF genes & repeats	Colon Smooth Muscle	Colon
45	chr9:100104000-100104400	ZNF genes & repeats	Ovary	ovary
46	chr9:100104000-100104600	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr9:100104000-100104600	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr9:100104000-100104800	ZNF genes & repeats	Fetal Intestine Large	intestine
49	chr9:100104000-100105400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
50	chr9:100104000-100109600	Weak transcription	Primary B cells from cord blood	blood

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