Variant report

Variant	rs62305055
Chromosome Location	chr4:100814129-100814130
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:100813266..100817175-chr4:100865527..100871657,11	MCF-7	breast:
2	chr4:100737221..100739559-chr4:100813734..100816080,3	MCF-7	breast:
3	chr4:100810623..100827791-chr4:100865444..100874425,55	K562	blood:
4	chr4:100472716..100475431-chr4:100812168..100815129,2	K562	blood:
5	chr4:100797831..100799412-chr4:100812268..100814439,2	K562	blood:
6	chr4:100799869..100822436-chr4:100866015..100873106,54	K562	blood:
7	chr4:100482462..100485382-chr4:100814090..100816679,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000245322	Chromatin interaction
ENSG00000138823	Chromatin interaction
ENSG00000164032	Chromatin interaction
ENSG00000145331	Chromatin interaction
ENSG00000070190	Chromatin interaction
ENSG00000164031	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10516459	0.97[EUR][1000 genomes]
rs12431	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs15924	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17539582	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17539883	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17541426	0.97[EUR][1000 genomes]
rs17541690	0.85[EUR][1000 genomes]
rs17612178	0.85[EUR][1000 genomes]
rs17613746	0.93[EUR][1000 genomes]
rs17614270	0.80[EUR][1000 genomes]
rs2866181	0.80[EUR][1000 genomes]
rs41275723	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62305039	0.85[EUR][1000 genomes]
rs62305041	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62305044	0.85[EUR][1000 genomes]
rs62305046	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62305049	0.87[EUR][1000 genomes]
rs62305052	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62305053	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62305056	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62305057	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62305059	0.97[EUR][1000 genomes]
rs62306060	0.97[EUR][1000 genomes]
rs62306061	0.85[EUR][1000 genomes]
rs62306063	0.97[EUR][1000 genomes]
rs62306066	0.90[EUR][1000 genomes]
rs62306067	0.90[EUR][1000 genomes]
rs62306068	0.90[EUR][1000 genomes]
rs62306069	0.90[EUR][1000 genomes]
rs62306070	0.90[EUR][1000 genomes]
rs62306071	0.90[EUR][1000 genomes]
rs62306073	0.88[EUR][1000 genomes]
rs62306075	0.85[EUR][1000 genomes]
rs62306084	0.85[EUR][1000 genomes]
rs62306085	0.85[EUR][1000 genomes]
rs62306111	0.80[EUR][1000 genomes]
rs767652	0.89[AMR][1000 genomes];0.97[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	nsv879661	chr4:100805207-100869635	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100789600-100814200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr4:100790400-100814600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr4:100798400-100814200	Weak transcription	Stomach Mucosa	stomach
4	chr4:100799600-100814800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr4:100800200-100814200	Weak transcription	Hela-S3	cervix
6	chr4:100801800-100814400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:100801800-100814600	Weak transcription	Psoas Muscle	Psoas
8	chr4:100802000-100814200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr4:100802000-100814200	Weak transcription	Aorta	Aorta
10	chr4:100802000-100814200	Weak transcription	Brain Germinal Matrix	brain
11	chr4:100802000-100814200	Weak transcription	Spleen	Spleen
12	chr4:100802000-100814200	Weak transcription	NHLF	lung
13	chr4:100802000-100814400	Weak transcription	Pancreas	Pancrea
14	chr4:100802200-100814200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr4:100802200-100814200	Weak transcription	Colonic Mucosa	Colon
16	chr4:100802200-100814200	Weak transcription	A549	lung
17	chr4:100802200-100814600	Weak transcription	Fetal Stomach	stomach
18	chr4:100802200-100814800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr4:100802200-100814800	Weak transcription	Esophagus	oesophagus
20	chr4:100802200-100814800	Weak transcription	Lung	lung
21	chr4:100802400-100814200	Weak transcription	Ovary	ovary
22	chr4:100802400-100814200	Weak transcription	Right Ventricle	heart
23	chr4:100802400-100814200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr4:100802400-100814200	Weak transcription	Thymus	Thymus
25	chr4:100802400-100814400	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr4:100803000-100814200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr4:100803000-100814200	Weak transcription	Fetal Brain Male	brain
28	chr4:100803000-100814200	Weak transcription	HSMMtube	muscle
29	chr4:100803200-100814400	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr4:100803600-100814200	Weak transcription	Brain Hippocampus Middle	brain
31	chr4:100804400-100814400	Weak transcription	Fetal Kidney	kidney
32	chr4:100805200-100814400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr4:100805400-100814400	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr4:100805400-100814400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr4:100805600-100814400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr4:100807600-100814200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr4:100807600-100814200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr4:100807600-100814200	Weak transcription	Fetal Muscle Leg	muscle
39	chr4:100807600-100814400	Weak transcription	Fetal Muscle Trunk	muscle
40	chr4:100807800-100814200	Weak transcription	Fetal Intestine Large	intestine
41	chr4:100808200-100814200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr4:100808400-100814200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr4:100808400-100814200	Weak transcription	Placenta	Placenta
44	chr4:100808400-100814600	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr4:100809400-100814400	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr4:100809600-100814200	Weak transcription	Brain Cingulate Gyrus	brain
47	chr4:100810400-100814200	Weak transcription	Fetal Intestine Small	intestine
48	chr4:100810800-100814200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr4:100811000-100814200	Weak transcription	Duodenum Mucosa	Duodenum
50	chr4:100811000-100814200	Weak transcription	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links