Variant report

Variant	rs13125323
Chromosome Location	chr4:85882145-85882146
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:85876909..85884375-chr4:85886007..85890757,11	MCF-7	breast:
2	chr4:85877992..85883015-chr4:85885939..85888953,5	MCF-7	breast:
3	chr4:85881229..85883388-chr4:85885235..85887298,2	K562	blood:
4	chr4:85879778..85882729-chr4:85884440..85887298,2	K562	blood:

Variant related genes	Relation type
ENSG00000163625	Chromatin interaction
ENSG00000180769	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11097028	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12500519	0.86[EUR][1000 genomes]
rs12501525	0.90[AMR][1000 genomes]
rs12502559	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12503330	0.87[EUR][1000 genomes]
rs12510410	0.81[EUR][1000 genomes]
rs13118671	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13139541	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13141072	0.86[EUR][1000 genomes]
rs1484661	0.89[AMR][1000 genomes]
rs1508670	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17009317	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17009334	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35190829	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35892581	0.93[EUR][1000 genomes]
rs4376130	0.81[EUR][1000 genomes]
rs4383611	0.90[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4590017	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4624645	0.82[EUR][1000 genomes]
rs55871210	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55912355	0.81[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs56094216	0.89[EUR][1000 genomes]
rs58074983	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6531777	0.80[EUR][1000 genomes]
rs6531783	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs66965560	0.85[EUR][1000 genomes]
rs67624868	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6815917	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6820517	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6847811	0.81[EUR][1000 genomes]
rs71631375	0.90[EUR][1000 genomes]
rs72664928	0.85[EUR][1000 genomes]
rs72664957	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7654035	0.81[EUR][1000 genomes]
rs7661609	0.82[EUR][1000 genomes]
rs7682896	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7690054	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7692223	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7694949	0.82[EUR][1000 genomes]
rs7695054	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7699226	0.81[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	esv1829655	chr4:85577491-86292692	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv508295	chr4:85822802-85885027	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv879516	chr4:85877561-85895436	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85845600-85882800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:85865200-85886400	Weak transcription	Fetal Muscle Trunk	muscle
3	chr4:85865800-85885400	Weak transcription	Fetal Muscle Leg	muscle
4	chr4:85866000-85886200	Weak transcription	Fetal Intestine Small	intestine
5	chr4:85866800-85884600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr4:85872000-85886600	Weak transcription	Lung	lung
7	chr4:85873400-85886600	Weak transcription	Esophagus	oesophagus
8	chr4:85873800-85884800	Weak transcription	HSMM	muscle
9	chr4:85873800-85885400	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr4:85873800-85885800	Weak transcription	Osteobl	bone
11	chr4:85874000-85884600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr4:85874600-85886200	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr4:85876400-85885400	Weak transcription	Left Ventricle	heart
14	chr4:85876600-85884200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr4:85876600-85885200	Weak transcription	Fetal Brain Male	brain
16	chr4:85876800-85882200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr4:85877000-85885200	Enhancers	Primary neutrophils fromperipheralblood	blood
18	chr4:85877400-85886200	Weak transcription	Rectal Smooth Muscle	rectum
19	chr4:85877600-85883200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr4:85877600-85883200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr4:85877600-85885200	Weak transcription	Right Atrium	heart
22	chr4:85877600-85885400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr4:85877600-85885400	Weak transcription	Brain Germinal Matrix	brain
24	chr4:85877600-85885400	Weak transcription	Placenta	Placenta
25	chr4:85877600-85885600	Weak transcription	NHEK	skin
26	chr4:85877600-85885800	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr4:85877600-85886000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr4:85879600-85885200	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr4:85879600-85886200	Weak transcription	Fetal Lung	lung
30	chr4:85879800-85882400	Enhancers	Fetal Heart	heart
31	chr4:85879800-85885400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr4:85879800-85885400	Weak transcription	Aorta	Aorta
33	chr4:85879800-85885800	Weak transcription	Stomach Smooth Muscle	stomach
34	chr4:85879800-85886200	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr4:85880000-85882800	Weak transcription	Fetal Kidney	kidney
36	chr4:85880000-85883200	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr4:85880000-85883200	Weak transcription	NHDF-Ad	bronchial
38	chr4:85880000-85884000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr4:85880000-85884200	Weak transcription	Ovary	ovary
40	chr4:85880000-85885200	Weak transcription	Adipose Nuclei	Adipose
41	chr4:85880000-85885200	Weak transcription	HepG2	liver
42	chr4:85880000-85885400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr4:85880000-85885400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr4:85880000-85885400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr4:85880000-85885400	Weak transcription	Fetal Intestine Large	intestine
46	chr4:85880000-85885400	Weak transcription	Gastric	stomach
47	chr4:85880000-85885400	Weak transcription	Pancreas	Pancrea
48	chr4:85880000-85885800	Weak transcription	Fetal Stomach	stomach
49	chr4:85880000-85886000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
50	chr4:85880000-85886200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links