Variant report

Variant	rs72724103
Chromosome Location	chr1:185139353-185139354
allele	A/G
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:19)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:19 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:185124700..185128224-chr1:185139265..185140988,3	K562	blood:
2	chr1:184773949..184776321-chr1:185137744..185139791,2	MCF-7	breast:
3	chr1:185135577..185140535-chr1:185283801..185287464,5	K562	blood:
4	chr1:185124896..185128464-chr1:185139300..185142346,3	MCF-7	breast:
5	chr1:184774793..184775299-chr1:185139297..185140000,2	MCF-7	breast:
6	chr1:185121566..185123829-chr1:185138646..185140537,2	K562	blood:
7	chr1:184773969..184776163-chr1:185139158..185140510,10	K562	blood:
8	chr1:184954878..184956343-chr1:185138546..185140215,38	MCF-7	breast:
9	chr1:184951284..184952540-chr1:185139307..185140010,3	MCF-7	breast:
10	chr1:184773739..184774341-chr1:185138872..185140157,3	MCF-7	breast:
11	chr1:185139306..185139973-chr1:185528908..185529803,2	MCF-7	breast:
12	chr1:184955159..184956516-chr1:185138302..185140225,10	MCF-7	breast:
13	chr1:184951356..184951888-chr1:185139298..185139895,2	MCF-7	breast:
14	chr1:185139310..185139983-chr2:106504463..106505452,2	MCF-7	breast:
15	chr1:184955131..184956350-chr1:185139017..185140214,5	K562	blood:
16	chr1:185139036..185139797-chr8:43092431..43093429,3	MCF-7	breast:
17	chr1:185135724..185140535-chr1:185281992..185285991,5	K562	blood:
18	chr1:185122329..185126145-chr1:185137203..185141899,4	K562	blood:
19	chr1:185139046..185139861-chr1:185639157..185640074,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RNF2-2	chr1:185139240-185141668	NONHSAT008410

No data

Variant related genes	Relation type
ENSG00000116668	Chromatin interaction
ENSG00000121486	Chromatin interaction
ENSG00000135842	Chromatin interaction
ENSG00000116679	Chromatin interaction
ENSG00000273004	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1046592	0.81[EUR][1000 genomes]
rs10489581	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs10797997	0.91[AMR][1000 genomes]
rs10797998	0.88[EUR][1000 genomes]
rs10911676	0.81[EUR][1000 genomes]
rs10911682	0.86[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs10911686	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12022419	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12023744	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12025995	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12026000	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12027607	0.91[AMR][1000 genomes]
rs12028809	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12030778	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12030967	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12031837	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12035073	0.82[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12035433	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12037466	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs12037692	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12039541	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs12040650	0.91[AMR][1000 genomes]
rs12041374	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12043427	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12043495	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12043561	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12043617	0.80[EUR][1000 genomes]
rs12044161	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12044997	0.85[EUR][1000 genomes]
rs12045772	0.85[EUR][1000 genomes]
rs12046095	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12046202	0.85[EUR][1000 genomes]
rs12046801	0.81[EUR][1000 genomes]
rs12064938	0.87[AMR][1000 genomes]
rs12086086	0.88[EUR][1000 genomes]
rs12094983	0.91[AMR][1000 genomes]
rs12401293	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12404644	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs12408279	0.80[EUR][1000 genomes]
rs12408500	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12409926	0.80[EUR][1000 genomes]
rs1407554	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs1544052	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs16865296	0.85[EUR][1000 genomes]
rs2273881	0.90[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs3766720	0.80[EUR][1000 genomes]
rs3806243	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs41264588	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs41264590	0.81[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs56107433	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs61125463	0.81[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs61495015	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs72724108	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72739677	0.91[AMR][1000 genomes]
rs72739679	0.83[AMR][1000 genomes]
rs72741807	0.82[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs72741808	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs72741816	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72741817	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72741819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][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	nsv1001323	chr1:184525419-185315876	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv535222	chr1:184525419-185315876	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
3	nsv548396	chr1:185038104-185151378	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv521613	chr1:185071831-185171869	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv548398	chr1:185136458-186003094	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:185127200-185147000	Weak transcription	Spleen	Spleen
2	chr1:185127200-185169800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:185127400-185144400	Weak transcription	Pancreas	Pancrea
4	chr1:185127400-185152200	Weak transcription	Aorta	Aorta
5	chr1:185127400-185153000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr1:185127400-185157400	Weak transcription	Small Intestine	intestine
7	chr1:185127400-185163400	Weak transcription	Esophagus	oesophagus
8	chr1:185127400-185192000	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr1:185127600-185139400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr1:185127600-185139400	Weak transcription	Fetal Kidney	kidney
11	chr1:185127600-185144400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr1:185127600-185144800	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr1:185127600-185145200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr1:185127600-185145400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr1:185127600-185147400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr1:185127600-185170000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr1:185127600-185184600	Weak transcription	Psoas Muscle	Psoas
18	chr1:185127600-185218200	Weak transcription	Right Ventricle	heart
19	chr1:185127800-185147000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr1:185128000-185166400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr1:185128200-185139400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr1:185128200-185139400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr1:185128200-185139400	Weak transcription	Dnd41	blood
24	chr1:185128200-185147200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr1:185128200-185153800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:185128200-185161200	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr1:185128400-185139400	Weak transcription	Hela-S3	cervix
28	chr1:185128400-185139600	Weak transcription	NHLF	lung
29	chr1:185128400-185145400	Weak transcription	Rectal Smooth Muscle	rectum
30	chr1:185128400-185155200	Weak transcription	NHDF-Ad	bronchial
31	chr1:185128400-185193800	Weak transcription	Brain Angular Gyrus	brain
32	chr1:185128400-185201800	Weak transcription	Gastric	stomach
33	chr1:185128600-185168200	Weak transcription	Fetal Heart	heart
34	chr1:185128600-185171400	Weak transcription	Fetal Brain Male	brain
35	chr1:185130800-185139400	Weak transcription	Fetal Thymus	thymus
36	chr1:185130800-185139400	Weak transcription	GM12878-XiMat	blood
37	chr1:185131600-185173000	Weak transcription	Brain Substantia Nigra	brain
38	chr1:185132000-185155800	Weak transcription	HSMMtube	muscle
39	chr1:185134000-185170600	Weak transcription	Lung	lung
40	chr1:185134200-185139400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr1:185134200-185139400	Weak transcription	Fetal Lung	lung
42	chr1:185134400-185139400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr1:185134600-185193200	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr1:185134800-185159800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr1:185135000-185162800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr1:185135400-185141400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
47	chr1:185135800-185147200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr1:185136400-185140800	Weak transcription	Fetal Intestine Small	intestine
49	chr1:185136400-185142600	Weak transcription	Fetal Stomach	stomach
50	chr1:185136600-185167200	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links