Variant report

Variant	rs73872725
Chromosome Location	chr3:141144431-141144432
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:26)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:26 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr3:141144380-141144530	HFF	foreskin:	n/a	n/a
2	CTCF	chr3:141144300-141144450	A549	lung:	n/a	n/a
3	POLR2A	chr3:141144231-141144760	U87	brain:	n/a	n/a
4	POLR2A	chr3:141144371-141145970	A549	lung:	n/a	n/a
5	EBF1	chr3:141144340-141144592	GM12878	blood:	n/a	n/a
6	POLR2A	chr3:141144231-141144766	U87	brain:	n/a	n/a
7	CTCF	chr3:141144320-141144470	HMEC	breast:	n/a	n/a
8	POLR2A	chr3:141143979-141145989	GM12878	blood:	n/a	n/a
9	NFIC	chr3:141144381-141145053	SK-N-SH	brain:	n/a	n/a
10	CTCF	chr3:141144300-141144450	BE2_C	brain:	n/a	n/a
11	POLR2A	chr3:141144337-141144491	A549	lung:	n/a	n/a
12	CTCF	chr3:141144300-141144450	HA-sp	spinal cord:	n/a	n/a
13	CTCF	chr3:141144300-141144450	GM12872	blood:	n/a	n/a
14	CTCF	chr3:141144320-141144470	HepG2	liver:	n/a	n/a
15	RUNX3	chr3:141144430-141144841	GM12878	blood:	n/a	n/a
16	FOXA2	chr3:141144280-141144451	HepG2	liver:	n/a	n/a
17	CTCF	chr3:141144300-141144450	AoAF	blood vessel:	n/a	n/a
18	CTCF	chr3:141144320-141144470	AG09319	gingival:	n/a	n/a
19	CTCF	chr3:141144300-141144450	GM12874	blood:	n/a	n/a
20	CTCF	chr3:141144300-141144450	HRE	kidney:	n/a	n/a
21	POLR2A	chr3:141144267-141145158	GM12878	blood:	n/a	n/a
22	SMC3	chr3:141144280-141144497	Hela-S3	cervix:	n/a	n/a
23	CTCF	chr3:141144230-141144502	IMR90	lung:	n/a	n/a
24	CTCF	chr3:141144300-141144450	GM12868	blood:	n/a	n/a
25	CTCF	chr3:141144380-141144530	HUVEC	blood vessel:	n/a	n/a
26	PAX5	chr3:141144272-141144567	GM12878	blood:	n/a	n/a

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:141120069..141122089-chr3:141143062..141145117,2	MCF-7	breast:
2	chr3:141119969..141121846-chr3:141142757..141144896,2	K562	blood:
3	chr3:141054751..141056991-chr3:141142273..141144878,2	MCF-7	breast:

No data

Variant related genes	Relation type
ZBTB38	TF binding region
ENSG00000177311	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11919595	1.00[ASN][1000 genomes]
rs12054156	1.00[ASN][1000 genomes]
rs12633093	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16851419	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16851423	0.89[AMR][1000 genomes]
rs721338	0.89[AMR][1000 genomes]
rs73872715	0.84[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	nsv829744	chr3:141016749-141189168	Genic enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141131600-141145200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr3:141131800-141144600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr3:141131800-141161200	Weak transcription	Thymus	Thymus
4	chr3:141132200-141144800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:141132200-141171000	Weak transcription	Primary B cells from cord blood	blood
6	chr3:141133800-141158400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:141133800-141158400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr3:141134000-141146800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr3:141134000-141161600	Weak transcription	Fetal Brain Male	brain
10	chr3:141134200-141145200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:141134200-141161600	Weak transcription	Primary T cells from cord blood	blood
12	chr3:141134600-141144600	Weak transcription	Liver	Liver
13	chr3:141134600-141148000	Weak transcription	Brain Germinal Matrix	brain
14	chr3:141135200-141144600	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr3:141135600-141160200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr3:141136000-141144600	Weak transcription	K562	blood
17	chr3:141136200-141144600	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr3:141136200-141144800	Weak transcription	Colonic Mucosa	Colon
19	chr3:141136400-141145000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr3:141137400-141144800	Weak transcription	Stomach Mucosa	stomach
21	chr3:141137600-141146400	Weak transcription	Fetal Muscle Trunk	muscle
22	chr3:141137800-141144800	Weak transcription	HSMMtube	muscle
23	chr3:141138000-141152000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr3:141138200-141144600	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr3:141138400-141145200	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr3:141138600-141144600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr3:141139000-141145000	Weak transcription	Fetal Muscle Leg	muscle
28	chr3:141139200-141145000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr3:141139400-141145000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr3:141140800-141159200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr3:141141000-141145400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr3:141141200-141144800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr3:141141200-141144800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr3:141141200-141144800	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr3:141141400-141144800	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr3:141141400-141145200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr3:141141400-141145600	Weak transcription	Small Intestine	intestine
38	chr3:141141400-141146200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr3:141141400-141146400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr3:141141400-141154800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr3:141141600-141145000	Weak transcription	Fetal Brain Female	brain
42	chr3:141141600-141145000	Strong transcription	Placenta	Placenta
43	chr3:141141600-141146200	Weak transcription	Hela-S3	cervix
44	chr3:141142400-141145200	Genic enhancers	GM12878-XiMat	blood
45	chr3:141142800-141144800	Enhancers	Stomach Smooth Muscle	stomach
46	chr3:141143000-141145600	Weak transcription	Primary B cells from peripheral blood	blood
47	chr3:141143000-141150800	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr3:141143400-141144600	Weak transcription	Ovary	ovary
49	chr3:141143400-141151600	Enhancers	Fetal Heart	heart
50	chr3:141143600-141147200	Enhancers	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links