Variant report

Variant	rs17657926
Chromosome Location	chr5:97840122-97840123
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10463709	0.80[EUR][1000 genomes]
rs10515274	0.83[EUR][1000 genomes]
rs11241495	0.82[EUR][1000 genomes]
rs12189186	0.83[EUR][1000 genomes]
rs12657824	0.81[EUR][1000 genomes]
rs17658482	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17714217	0.82[EUR][1000 genomes]
rs1862374	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs193998	0.81[EUR][1000 genomes]
rs2032855	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2080993	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs27032	0.85[CHB][hapmap]
rs3919570	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4358552	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4562067	0.83[EUR][1000 genomes]
rs460690	0.80[EUR][1000 genomes]
rs4703085	0.83[EUR][1000 genomes]
rs56048042	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56201194	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58281947	0.82[EUR][1000 genomes]
rs58386439	0.82[EUR][1000 genomes]
rs59100135	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs59125454	0.83[EUR][1000 genomes]
rs61419074	0.83[EUR][1000 genomes]
rs6595339	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6595369	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6861004	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6866878	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6873036	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72503456	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73772949	0.83[EUR][1000 genomes]
rs73772950	0.82[EUR][1000 genomes]
rs73772956	0.83[EUR][1000 genomes]
rs73772957	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73772959	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73772962	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs754246	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1018555	chr5:97719032-97873906	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv882412	chr5:97796120-97953719	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv328931	chr5:97837626-97844231	Weak transcription Enhancers Strong transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:97837400-97840200	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr5:97838000-97844400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr5:97839200-97845400	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr5:97839400-97840200	Enhancers	Fetal Intestine Large	intestine
5	chr5:97839400-97840800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr5:97839600-97840200	Enhancers	Duodenum Mucosa	Duodenum
7	chr5:97839600-97840800	Enhancers	HepG2	liver
8	chr5:97839600-97841000	Enhancers	Stomach Mucosa	stomach
9	chr5:97839600-97845000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr5:97839800-97840200	Weak transcription	Fetal Intestine Small	intestine
11	chr5:97839800-97841000	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr5:97839800-97844600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr5:97839800-97845000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr5:97839800-97845000	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr5:97839800-97845800	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links