Variant report

Variant	rs73153001
Chromosome Location	chr3:146257435-146257436
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:8)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:8 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TEAD4	chr3:146257117-146257549	HepG2	liver:	n/a	n/a
2	POLR2A	chr3:146257373-146257875	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr3:146257006-146262899	K562	blood:	n/a	n/a
4	FOXA1	chr3:146257077-146257629	HepG2	liver:	n/a	n/a
5	FOXA2	chr3:146257147-146257443	HepG2	liver:	n/a	n/a
6	IRF1	chr3:146257394-146257646	K562	blood:	n/a	n/a
7	FOXA1	chr3:146257191-146257458	HepG2	liver:	n/a	n/a
8	MXI1	chr3:146257157-146257488	HepG2	liver:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:146246208..146248631-chr3:146255934..146259018,3	K562	blood:
2	chr3:146185784..146189530-chr3:146255597..146259009,4	K562	blood:
3	chr3:146254216..146256622-chr3:146257349..146260200,2	K562	blood:
4	chr3:146251866..146257697-chr3:146260468..146262994,8	MCF-7	breast:
5	chr3:146257059..146260785-chr3:146260976..146263871,3	MCF-7	breast:

No data

Variant related genes	Relation type
PLSCR1	TF binding region
ENSG00000163746	Chromatin interaction
ENSG00000188313	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs13434283	1.00[AFR][1000 genomes]
rs28399898	1.00[AFR][1000 genomes]
rs3773521	1.00[AFR][1000 genomes]
rs60601385	1.00[AFR][1000 genomes]
rs9818634	1.00[AFR][1000 genomes]
rs9859604	1.00[AFR][1000 genomes]
rs9862582	1.00[AFR][1000 genomes]
rs9880682	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448053	chr3:146186791-146262066	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	esv3523751	chr3:146186838-146261806	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	esv3523753	chr3:146186838-146261806	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv2496437	chr3:146186902-146262961	Enhancers Active TSS Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv1014493	chr3:146255594-146288414	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:146225400-146260800	Weak transcription	NH-A	brain
2	chr3:146225600-146258600	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:146229000-146259600	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr3:146231600-146258600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr3:146231600-146259000	Weak transcription	Brain Angular Gyrus	brain
6	chr3:146231600-146260800	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr3:146232000-146259600	Weak transcription	NHDF-Ad	bronchial
8	chr3:146233000-146259800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:146233000-146261400	Weak transcription	Fetal Muscle Trunk	muscle
10	chr3:146233600-146259200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr3:146234400-146258000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr3:146241800-146258600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr3:146244800-146258200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr3:146247200-146260800	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr3:146248800-146260800	Weak transcription	HSMM	muscle
16	chr3:146249000-146259600	Weak transcription	Aorta	Aorta
17	chr3:146249400-146260800	Weak transcription	NHLF	lung
18	chr3:146250600-146257600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr3:146250600-146258400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr3:146250600-146259600	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr3:146250600-146260000	Weak transcription	Thymus	Thymus
22	chr3:146250600-146260800	Weak transcription	Fetal Kidney	kidney
23	chr3:146251000-146259200	Weak transcription	Osteobl	bone
24	chr3:146251400-146257600	Weak transcription	Primary B cells from peripheral blood	blood
25	chr3:146251600-146259600	Weak transcription	Colonic Mucosa	Colon
26	chr3:146252600-146258800	Weak transcription	NHEK	skin
27	chr3:146252600-146259600	Weak transcription	Psoas Muscle	Psoas
28	chr3:146253400-146259200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr3:146254600-146259600	Weak transcription	HMEC	breast
30	chr3:146254600-146261400	Weak transcription	Brain Germinal Matrix	brain
31	chr3:146254800-146257600	Weak transcription	Duodenum Mucosa	Duodenum
32	chr3:146254800-146259600	Weak transcription	Brain Cingulate Gyrus	brain
33	chr3:146254800-146259800	Weak transcription	Fetal Muscle Leg	muscle
34	chr3:146255000-146258200	Weak transcription	Hela-S3	cervix
35	chr3:146255000-146258400	Weak transcription	Pancreatic Islets	Pancreatic Islet
36	chr3:146255000-146259000	Weak transcription	Stomach Smooth Muscle	stomach
37	chr3:146255000-146259400	Weak transcription	Fetal Lung	lung
38	chr3:146255000-146261000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr3:146255200-146258800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr3:146255200-146259800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr3:146255200-146260800	Weak transcription	Placenta	Placenta
42	chr3:146255400-146258800	Weak transcription	Colon Smooth Muscle	Colon
43	chr3:146255400-146259200	Weak transcription	Fetal Stomach	stomach
44	chr3:146255400-146259400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr3:146255400-146260800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr3:146255800-146259200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
47	chr3:146256000-146258800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr3:146256000-146259200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr3:146256600-146258600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
50	chr3:146256800-146257600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links