Variant report

Variant	rs2237654
Chromosome Location	chr7:106760602-106760603
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:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:106648480..106651260-chr7:106759004..106761644,2	K562	blood:
2	chr7:106759524..106761230-chr7:106763085..106765571,2	K562	blood:
3	chr7:106758338..106764919-chr7:106770335..106778369,9	K562	blood:
4	chr7:106755757..106757924-chr7:106759661..106762165,2	K562	blood:
5	chr7:106641138..106644033-chr7:106760263..106762025,2	MCF-7	breast:
6	chr7:106628841..106631624-chr7:106757994..106760785,2	K562	blood:
7	chr7:106755457..106758160-chr7:106760094..106763600,5	K562	blood:

No data

Variant related genes	Relation type
ENSG00000243193	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10281856	0.82[JPT][hapmap]
rs10953528	0.83[ASN][1000 genomes]
rs12667954	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12669339	0.83[ASN][1000 genomes]
rs12674011	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12705402	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12705403	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1860803	0.82[JPT][hapmap]
rs2237652	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2237656	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2237657	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2283037	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2302453	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3735613	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3801969	0.83[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs62483580	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62483581	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6466157	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6466158	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6952920	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6969719	0.85[JPT][hapmap]
rs717099	0.82[JPT][hapmap]
rs741008	0.84[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7790497	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7809330	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs917760	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9648946	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[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	nsv831087	chr7:106673465-106872460	Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:106756600-106771200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr7:106759200-106762000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr7:106759200-106762800	Weak transcription	Ovary	ovary
4	chr7:106759400-106761600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr7:106759400-106762000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr7:106759400-106762400	Weak transcription	Stomach Smooth Muscle	stomach
7	chr7:106759400-106762600	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr7:106759400-106762800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr7:106759800-106762800	Weak transcription	Fetal Lung	lung
10	chr7:106759800-106763400	Weak transcription	NHLF	lung
11	chr7:106759800-106771600	Weak transcription	Brain Anterior Caudate	brain
12	chr7:106759800-106774000	Weak transcription	Left Ventricle	heart
13	chr7:106760000-106763200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr7:106760200-106762600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr7:106760200-106763400	Weak transcription	Fetal Stomach	stomach
16	chr7:106760200-106771200	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr7:106760200-106782000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr7:106760400-106762600	Weak transcription	Adipose Nuclei	Adipose
19	chr7:106760400-106762800	Weak transcription	K562	blood
20	chr7:106760400-106808400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr7:106760600-106760800	Weak transcription	Right Atrium	heart
22	chr7:106760600-106762200	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr7:106760600-106765400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr7:106760600-106771400	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links