Variant report

Variant	rs28409703
Chromosome Location	chr7:101517448-101517449
allele	C/T
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:101505683..101508584-chr7:101516146..101519244,4	K562	blood:
2	chr7:101499241..101502568-chr7:101516152..101518737,4	K562	blood:
3	chr7:101500513..101502568-chr7:101516152..101518658,2	K562	blood:
4	chr7:101514955..101516644-chr7:101516805..101518338,2	K562	blood:
5	chr7:101456834..101459673-chr7:101517293..101519247,2	MCF-7	breast:
6	chr7:101505683..101508254-chr7:101516347..101519089,2	K562	blood:
7	chr7:100487416..100489348-chr7:101516491..101519278,2	MCF-7	breast:
8	chr7:101514433..101518580-chr7:101582721..101585796,4	MCF-7	breast:
9	chr7:101512083..101520283-chr7:101521327..101527237,12	K562	blood:
10	chr7:101512598..101514582-chr7:101516207..101518095,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000257923	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10081174	0.87[ASN][1000 genomes]
rs10226289	0.88[ASN][1000 genomes]
rs10227516	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10241905	0.87[ASN][1000 genomes]
rs10242019	0.92[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10255356	0.88[ASN][1000 genomes]
rs10256232	0.88[ASN][1000 genomes]
rs10259103	0.87[ASN][1000 genomes]
rs10259964	0.88[ASN][1000 genomes]
rs10261524	0.88[ASN][1000 genomes]
rs10264844	0.88[ASN][1000 genomes]
rs10264855	0.88[ASN][1000 genomes]
rs10264866	0.88[ASN][1000 genomes]
rs10271171	0.88[ASN][1000 genomes]
rs10271610	0.87[ASN][1000 genomes]
rs10271838	0.87[ASN][1000 genomes]
rs10275899	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10279763	0.87[ASN][1000 genomes]
rs12532535	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12534641	0.87[ASN][1000 genomes]
rs12539310	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13227531	0.88[ASN][1000 genomes]
rs13229243	0.87[ASN][1000 genomes]
rs13236072	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs13241079	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2410921	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34750675	0.87[AMR][1000 genomes]
rs35065711	0.82[ASN][1000 genomes]
rs4729756	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4729757	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4729758	0.85[AFR][1000 genomes]
rs4729759	0.88[ASN][1000 genomes]
rs4729760	0.87[ASN][1000 genomes]
rs55824493	0.87[ASN][1000 genomes]
rs60656667	0.85[AMR][1000 genomes]
rs72603509	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72603510	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs72603511	0.87[ASN][1000 genomes]
rs72603512	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9656073	0.87[ASN][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	nsv1024319	chr7:101368299-101668159	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv539047	chr7:101368299-101668159	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	nsv1020372	chr7:101420819-101718950	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:101501000-101517600	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr7:101501000-101523600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr7:101501000-101525000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr7:101504800-101518200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr7:101509000-101522600	Weak transcription	Primary T cells from cord blood	blood
6	chr7:101511600-101519000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr7:101511600-101523400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr7:101511800-101523600	Weak transcription	Primary B cells from peripheral blood	blood
9	chr7:101512200-101524000	Weak transcription	NHLF	lung
10	chr7:101513200-101523600	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr7:101513400-101517800	Weak transcription	Right Atrium	heart
12	chr7:101513400-101523400	Weak transcription	Small Intestine	intestine
13	chr7:101513600-101522600	Weak transcription	Liver	Liver
14	chr7:101513600-101525200	Weak transcription	Spleen	Spleen
15	chr7:101513800-101518200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr7:101514000-101517600	Weak transcription	Brain Cingulate Gyrus	brain
17	chr7:101514000-101517600	Weak transcription	Brain Substantia Nigra	brain
18	chr7:101514000-101517800	Weak transcription	Brain Angular Gyrus	brain
19	chr7:101514200-101518200	Weak transcription	Brain Anterior Caudate	brain
20	chr7:101514200-101518600	Weak transcription	Stomach Mucosa	stomach
21	chr7:101514200-101521200	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr7:101514200-101522200	Weak transcription	HepG2	liver
23	chr7:101514200-101523800	Weak transcription	Fetal Kidney	kidney
24	chr7:101514400-101517600	Weak transcription	Brain Hippocampus Middle	brain
25	chr7:101514400-101517600	Weak transcription	Fetal Intestine Small	intestine
26	chr7:101514400-101517800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr7:101514400-101521200	Weak transcription	Gastric	stomach
28	chr7:101514400-101521200	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr7:101514400-101527400	Weak transcription	GM12878-XiMat	blood
30	chr7:101514600-101517600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr7:101514600-101517600	Weak transcription	Left Ventricle	heart
32	chr7:101514600-101518600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr7:101514600-101524000	Weak transcription	Fetal Stomach	stomach
34	chr7:101514800-101517600	Weak transcription	Lung	lung
35	chr7:101514800-101520400	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr7:101514800-101521200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr7:101514800-101521200	Weak transcription	Fetal Intestine Large	intestine
38	chr7:101514800-101523400	Weak transcription	Hela-S3	cervix
39	chr7:101514800-101523600	Weak transcription	NHEK	skin
40	chr7:101514800-101525200	Weak transcription	Esophagus	oesophagus
41	chr7:101514800-101525400	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chr7:101515000-101517600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr7:101515000-101517600	Weak transcription	Psoas Muscle	Psoas
44	chr7:101515000-101517800	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr7:101515000-101517800	Weak transcription	Fetal Thymus	thymus
46	chr7:101515000-101517800	Weak transcription	Thymus	Thymus
47	chr7:101515000-101518200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr7:101515000-101520400	Weak transcription	Right Ventricle	heart
49	chr7:101515000-101521200	Weak transcription	Pancreas	Pancrea
50	chr7:101515000-101521200	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links