Variant report

Variant	rs62331150
Chromosome Location	chr4:106069013-106069014
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:56707907..56710968-chr4:106067665..106071186,3	MCF-7	breast:
2	chr4:106068073..106070756-chr4:106374614..106376801,2	MCF-7	breast:
3	chr4:106066586..106070319-chr4:106392729..106397085,7	MCF-7	breast:
4	chr4:106064811..106067302-chr4:106067349..106069355,2	K562	blood:
5	chr4:105812145..105831361-chr4:106062414..106073665,101	MCF-7	breast:
6	chr4:105412673..105416504-chr4:106067270..106069613,3	MCF-7	breast:
7	chr4:106022079..106026589-chr4:106064672..106069140,4	MCF-7	breast:
8	chr4:105883010..105897017-chr4:106062943..106072055,55	MCF-7	breast:
9	chr4:105884036..105898505-chr4:106054854..106072562,138	MCF-7	breast:
10	chr4:106064646..106070521-chr4:106098298..106104512,9	MCF-7	breast:
11	chr4:106057698..106064116-chr4:106066476..106070338,7	K562	blood:
12	chr4:105823235..105830393-chr4:106065333..106069817,8	MCF-7	breast:
13	chr3:31572844..31575028-chr4:106066590..106069409,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000138777	Chromatin interaction
ENSG00000168769	Chromatin interaction
ENSG00000251473	Chromatin interaction
ENSG00000251259	Chromatin interaction
ENSG00000251586	Chromatin interaction
ENSG00000168772	Chromatin interaction
ENSG00000163527	Chromatin interaction
ENSG00000248242	Chromatin interaction
ENSG00000248373	Chromatin interaction
ENSG00000251906	Chromatin interaction
ENSG00000212195	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10010281	0.88[EUR][1000 genomes]
rs10014102	0.85[ASN][1000 genomes]
rs10022109	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12641113	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12643257	0.88[ASN][1000 genomes]
rs12645165	0.88[ASN][1000 genomes]
rs12647922	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17617028	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2189234	0.88[ASN][1000 genomes]
rs2285720	0.81[ASN][1000 genomes]
rs35515350	0.89[EUR][1000 genomes]
rs62331151	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs974801	0.88[ASN][1000 genomes]
rs9790517	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9884482	0.84[ASN][1000 genomes]
rs988799	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461609	chr4:105869548-106366209	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv470063	chr4:105869548-106366209	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv595007	chr4:105869548-106366209	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv830025	chr4:105988876-106137946	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106064800-106071800	Active TSS	GM12878-XiMat	blood
2	chr4:106066200-106070000	Active TSS	Monocytes-CD14+_RO01746	blood
3	chr4:106066200-106070200	Active TSS	Rectal Mucosa Donor 31	rectum
4	chr4:106066200-106070600	Active TSS	Primary monocytes fromperipheralblood	blood
5	chr4:106066200-106070800	Active TSS	Duodenum Smooth Muscle	Duodenum
6	chr4:106066400-106069200	Active TSS	Primary neutrophils fromperipheralblood	blood
7	chr4:106066400-106069200	Active TSS	Brain Angular Gyrus	brain
8	chr4:106066600-106069200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
9	chr4:106066600-106069200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr4:106066600-106069400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
11	chr4:106066600-106069400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr4:106066600-106069400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr4:106066600-106069400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
14	chr4:106066600-106069400	Active TSS	Brain Anterior Caudate	brain
15	chr4:106066600-106069600	Active TSS	Breast Myoepithelial Primary Cells	Breast
16	chr4:106066600-106069600	Active TSS	Rectal Smooth Muscle	rectum
17	chr4:106066600-106070200	Active TSS	Brain Inferior Temporal Lobe	brain
18	chr4:106066600-106070200	Active TSS	Right Atrium	heart
19	chr4:106066600-106070200	Active TSS	NHDF-Ad	bronchial
20	chr4:106066600-106070400	Active TSS	Pancreatic Islets	Pancreatic Islet
21	chr4:106066600-106070800	Active TSS	Duodenum Mucosa	Duodenum
22	chr4:106066600-106070800	Active TSS	Rectal Mucosa Donor 29	rectum
23	chr4:106066800-106069200	Active TSS	Primary T killer memory cells from peripheral blood	blood
24	chr4:106066800-106069400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
25	chr4:106066800-106069400	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
26	chr4:106066800-106069400	Active TSS	Fetal Lung	lung
27	chr4:106066800-106069400	Active TSS	Left Ventricle	heart
28	chr4:106066800-106069400	Active TSS	Lung	lung
29	chr4:106066800-106069600	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr4:106066800-106069600	Active TSS	Brain Substantia Nigra	brain
31	chr4:106066800-106069600	Active TSS	Fetal Adrenal Gland	Adrenal Gland
32	chr4:106066800-106069600	Active TSS	Fetal Intestine Large	intestine
33	chr4:106066800-106069600	Active TSS	Fetal Intestine Small	intestine
34	chr4:106066800-106069600	Active TSS	Skeletal Muscle Male	skeletal muscle
35	chr4:106066800-106069800	Active TSS	Aorta	Aorta
36	chr4:106066800-106069800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
37	chr4:106066800-106069800	Active TSS	Colon Smooth Muscle	Colon
38	chr4:106066800-106069800	Active TSS	Ovary	ovary
39	chr4:106066800-106069800	Active TSS	Right Ventricle	heart
40	chr4:106066800-106070000	Active TSS	Fetal Kidney	kidney
41	chr4:106066800-106070200	Active TSS	Fetal Stomach	stomach
42	chr4:106066800-106070200	Active TSS	Skeletal Muscle Female	skeletal muscle
43	chr4:106066800-106070400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr4:106066800-106070400	Active TSS	Brain Cingulate Gyrus	brain
45	chr4:106066800-106070400	Active TSS	HSMMtube	muscle
46	chr4:106066800-106070400	Active TSS	NHLF	lung
47	chr4:106067000-106069200	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr4:106067000-106069200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr4:106067000-106069200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
50	chr4:106067000-106069200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links