Variant report

Variant	rs55849075
Chromosome Location	chr3:119717365-119717366
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:119712509..119715289-chr3:119716837..119718695,2	MCF-7	breast:
2	chr3:119716001..119720864-chr3:119812856..119815469,4	MCF-7	breast:
3	chr3:119717186..119719857-chr3:119810036..119812260,3	K562	blood:
4	chr3:119649143..119651386-chr3:119714883..119717444,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000082701	Chromatin interaction
ENSG00000242622	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs55739402	0.83[AFR][1000 genomes]
rs56181436	1.00[AFR][1000 genomes]
rs56897578	1.00[AFR][1000 genomes]
rs57028282	0.92[AFR][1000 genomes]
rs59890455	0.83[AFR][1000 genomes]
rs61091679	0.92[AFR][1000 genomes]
rs73854723	0.85[AFR][1000 genomes]
rs73854725	0.92[AFR][1000 genomes]
rs73854727	0.85[AFR][1000 genomes]
rs73854732	0.83[AFR][1000 genomes]
rs73854734	0.92[AFR][1000 genomes]
rs73854742	0.92[AFR][1000 genomes]
rs73854743	0.92[AFR][1000 genomes]
rs73854748	0.92[AFR][1000 genomes]
rs73854754	1.00[AFR][1000 genomes]
rs73854756	0.92[AFR][1000 genomes]
rs73854758	0.92[AFR][1000 genomes]
rs73854759	1.00[AFR][1000 genomes]
rs73854760	1.00[AFR][1000 genomes]
rs73854763	0.88[AFR][1000 genomes]
rs73854768	1.00[AFR][1000 genomes]
rs73854771	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949589	chr3:119560606-120175917	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1001476	chr3:119575386-120075417	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
3	nsv536704	chr3:119575386-120075417	Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119656600-119718400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr3:119681200-119723200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr3:119689000-119722600	Weak transcription	Gastric	stomach
4	chr3:119692400-119723200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr3:119693600-119732200	Weak transcription	A549	lung
6	chr3:119700600-119722800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:119701000-119720000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr3:119701000-119722600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:119709000-119722600	Weak transcription	Ovary	ovary
10	chr3:119709200-119723000	Weak transcription	Spleen	Spleen
11	chr3:119710200-119719000	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr3:119710200-119722600	Weak transcription	Stomach Mucosa	stomach
13	chr3:119710200-119730800	Weak transcription	Rectal Smooth Muscle	rectum
14	chr3:119710400-119722800	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr3:119711400-119719200	Weak transcription	NHEK	skin
16	chr3:119711400-119729200	Weak transcription	Colon Smooth Muscle	Colon
17	chr3:119711800-119722800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr3:119711800-119723200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr3:119712000-119723400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr3:119712000-119732200	Weak transcription	HepG2	liver
21	chr3:119712200-119718000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr3:119712200-119718400	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr3:119712200-119723400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr3:119712200-119732400	Weak transcription	NHLF	lung
25	chr3:119712400-119722800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr3:119712600-119718000	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr3:119712600-119745000	Weak transcription	Hela-S3	cervix
28	chr3:119712800-119719200	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr3:119712800-119719200	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr3:119712800-119722000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr3:119712800-119722800	Weak transcription	Thymus	Thymus
32	chr3:119712800-119723400	Weak transcription	Osteobl	bone
33	chr3:119712800-119732200	Weak transcription	Duodenum Mucosa	Duodenum
34	chr3:119713000-119722000	Weak transcription	Psoas Muscle	Psoas
35	chr3:119713000-119722800	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr3:119713200-119744400	Weak transcription	Fetal Kidney	kidney
37	chr3:119713800-119722600	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr3:119714400-119722600	Weak transcription	Brain Angular Gyrus	brain
39	chr3:119714400-119723000	Weak transcription	Fetal Brain Male	brain
40	chr3:119715400-119719400	Weak transcription	Fetal Brain Female	brain
41	chr3:119715600-119717400	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr3:119715600-119718600	Weak transcription	NH-A	brain
43	chr3:119715600-119722800	Weak transcription	Stomach Smooth Muscle	stomach
44	chr3:119715800-119718600	Weak transcription	Primary B cells from peripheral blood	blood
45	chr3:119715800-119722600	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr3:119716200-119718600	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr3:119716400-119721000	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr3:119716400-119722000	Weak transcription	K562	blood
49	chr3:119716400-119722600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr3:119716600-119718400	Weak transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links