Variant report

Variant	rs28565548
Chromosome Location	chr3:101230663-101230664
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:101230038..101233245-chr3:101289410..101293829,6	MCF-7	breast:
2	chr3:101230042..101231916-chr3:101297585..101299542,2	K562	blood:
3	chr3:101227907..101233845-chr3:101279162..101282528,7	K562	blood:
4	chr3:101230402..101234052-chr3:101279198..101281668,4	MCF-7	breast:
5	chr3:101229711..101231940-chr3:101430823..101433136,2	MCF-7	breast:
6	chr3:101218206..101221093-chr3:101229989..101232899,2	K562	blood:
7	chr3:101230224..101236227-chr3:101287209..101294479,8	K562	blood:
8	chr3:100118496..100120943-chr3:101229402..101232050,2	K562	blood:
9	chr17:56707800..56709501-chr3:101229613..101232436,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000212195	Chromatin interaction
ENSG00000238525	Chromatin interaction
ENSG00000081154	Chromatin interaction
ENSG00000244119	Chromatin interaction
ENSG00000206535	Chromatin interaction
ENSG00000154174	Chromatin interaction
ENSG00000174173	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1019677	0.87[EUR][1000 genomes]
rs10936607	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10936642	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10936664	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12491955	0.84[EUR][1000 genomes]
rs12496260	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13087404	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13320918	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13322987	0.92[EUR][1000 genomes]
rs16843927	0.93[EUR][1000 genomes]
rs1918405	0.87[EUR][1000 genomes]
rs2141179	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2141180	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2178036	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2250611	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2317699	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2317700	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2317745	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2317749	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2317751	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2433031	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2553416	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2553424	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2553427	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2553430	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2682383	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2682384	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2682386	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2682390	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2682391	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34255148	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3846091	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4287896	0.87[EUR][1000 genomes]
rs4683899	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4683900	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4683917	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4683918	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs473702	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs497953	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs520558	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs551442	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56075912	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62280667	0.81[ASN][1000 genomes]
rs6441602	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6441608	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6441610	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6771561	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6772703	0.91[EUR][1000 genomes]
rs6773536	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7628681	0.87[EUR][1000 genomes]
rs7631506	0.92[EUR][1000 genomes]
rs7636475	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9814991	0.88[EUR][1000 genomes]
rs9843186	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9856435	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9859077	0.81[ASN][1000 genomes]
rs9874188	0.83[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs28565548	SENP7	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101198600-101231000	Weak transcription	GM12878-XiMat	blood
2	chr3:101202200-101230800	Weak transcription	Psoas Muscle	Psoas
3	chr3:101204000-101231200	Weak transcription	Esophagus	oesophagus
4	chr3:101204400-101230800	Weak transcription	Right Ventricle	heart
5	chr3:101204600-101230800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr3:101207800-101231000	Weak transcription	Aorta	Aorta
7	chr3:101210000-101231200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:101211200-101231000	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr3:101211800-101230800	Weak transcription	Lung	lung
10	chr3:101211800-101231400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:101212200-101230800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr3:101212200-101230800	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr3:101212200-101230800	Weak transcription	Brain Hippocampus Middle	brain
14	chr3:101212200-101230800	Weak transcription	Fetal Kidney	kidney
15	chr3:101212200-101230800	Weak transcription	Left Ventricle	heart
16	chr3:101212200-101230800	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr3:101212200-101230800	Weak transcription	HSMM	muscle
18	chr3:101212200-101231000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:101212200-101231000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr3:101212200-101231000	Weak transcription	Spleen	Spleen
21	chr3:101216600-101231000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr3:101217800-101230800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr3:101217800-101231000	Weak transcription	Ovary	ovary
24	chr3:101218000-101230800	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr3:101218400-101230800	Weak transcription	Fetal Intestine Small	intestine
26	chr3:101218400-101231000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr3:101219600-101231000	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr3:101222800-101230800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr3:101223800-101231000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr3:101224000-101231000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr3:101226400-101230800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr3:101227000-101231000	Enhancers	Primary T helper naive cells from peripheral blood	blood
33	chr3:101227600-101231000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr3:101227600-101231000	Enhancers	Primary T helper cells PMA-I stimulated	--
35	chr3:101228000-101231000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
36	chr3:101228000-101231000	Enhancers	Primary T killer memory cells from peripheral blood	blood
37	chr3:101228000-101231000	Weak transcription	Stomach Mucosa	stomach
38	chr3:101228200-101231000	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr3:101228400-101231000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr3:101228800-101230800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr3:101228800-101230800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr3:101229200-101230800	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr3:101229200-101230800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr3:101229200-101231000	Weak transcription	NHDF-Ad	bronchial
45	chr3:101229400-101230800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:101229400-101230800	Weak transcription	Hela-S3	cervix
47	chr3:101229400-101230800	Weak transcription	NHEK	skin
48	chr3:101229400-101231000	Enhancers	Primary T cells fromperipheralblood	blood
49	chr3:101229400-101231000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr3:101229600-101230800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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