Variant report

Variant	rs61954377
Chromosome Location	chr12:122755974-122755975
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr12:122755904-122756048	Lung_OC	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr12:122748511..122753290-chr12:122753614..122757963,7	K562	blood:
2	chr12:122749589..122752606-chr12:122753889..122758742,5	K562	blood:
3	chr12:122754913..122757093-chr12:122761269..122764385,4	K562	blood:

Variant related genes	Relation type
VPS33A	TF binding region
ENSG00000256861	Chromatin interaction
ENSG00000130779	Chromatin interaction
ENSG00000139719	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11057290	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11061368	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11836373	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12580043	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1882581	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2089887	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35422129	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58134429	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60995900	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61954363	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61954365	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954366	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954367	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954368	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61954369	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954370	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954371	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61954374	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954376	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954378	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61954381	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954382	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954383	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954393	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954394	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954395	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954397	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61955587	0.82[AMR][1000 genomes]
rs61955588	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61955589	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7132789	0.91[EUR][1000 genomes]
rs7303975	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7311354	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7953290	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7964780	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7968764	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7979955	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs907485	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv529868	chr12:121956483-122944265	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 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	chr12:122751400-122757400	Weak transcription	Spleen	Spleen
2	chr12:122751600-122757200	Weak transcription	Gastric	stomach
3	chr12:122751600-122803400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr12:122751800-122757200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr12:122751800-122757200	Weak transcription	Ovary	ovary
6	chr12:122751800-122757400	Weak transcription	Esophagus	oesophagus
7	chr12:122751800-122757400	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr12:122751800-122760400	Weak transcription	Pancreas	Pancrea
9	chr12:122751800-122760800	Weak transcription	Aorta	Aorta
10	chr12:122751800-122762800	Weak transcription	Psoas Muscle	Psoas
11	chr12:122751800-122762800	Weak transcription	Small Intestine	intestine
12	chr12:122752000-122756000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr12:122752000-122756000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr12:122752000-122756000	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr12:122752000-122756000	Weak transcription	Osteobl	bone
16	chr12:122752000-122756200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr12:122752000-122756200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr12:122752000-122756200	Weak transcription	Brain Cingulate Gyrus	brain
19	chr12:122752000-122756200	Weak transcription	Duodenum Mucosa	Duodenum
20	chr12:122752000-122756200	Weak transcription	A549	lung
21	chr12:122752000-122756200	Weak transcription	HSMM	muscle
22	chr12:122752000-122756600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr12:122752000-122756800	Weak transcription	Brain Angular Gyrus	brain
24	chr12:122752000-122756800	Weak transcription	Brain Anterior Caudate	brain
25	chr12:122752000-122756800	Weak transcription	Colonic Mucosa	Colon
26	chr12:122752000-122756800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr12:122752000-122756800	Weak transcription	Fetal Intestine Large	intestine
28	chr12:122752000-122756800	Weak transcription	NHDF-Ad	bronchial
29	chr12:122752000-122756800	Weak transcription	NHEK	skin
30	chr12:122752000-122757000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr12:122752000-122757000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr12:122752000-122757000	Weak transcription	Colon Smooth Muscle	Colon
33	chr12:122752000-122757000	Weak transcription	Fetal Brain Female	brain
34	chr12:122752000-122757000	Weak transcription	HSMMtube	muscle
35	chr12:122752000-122757200	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr12:122752000-122757200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr12:122752000-122757200	Weak transcription	Primary hematopoietic stem cells	blood
38	chr12:122752000-122757200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr12:122752000-122757200	Weak transcription	Brain Germinal Matrix	brain
40	chr12:122752000-122757200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr12:122752000-122757200	Weak transcription	Fetal Muscle Trunk	muscle
42	chr12:122752000-122757200	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr12:122752000-122757200	Weak transcription	Right Ventricle	heart
44	chr12:122752000-122757200	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr12:122752000-122757200	Weak transcription	GM12878-XiMat	blood
46	chr12:122752000-122757200	Weak transcription	HMEC	breast
47	chr12:122752000-122757200	Weak transcription	NHLF	lung
48	chr12:122752000-122757400	Weak transcription	Primary T cells from cord blood	blood
49	chr12:122752000-122757400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr12:122752000-122757400	Weak transcription	Brain Inferior Temporal Lobe	brain

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