Variant report

Variant	rs1908438
Chromosome Location	chr4:62406893-62406894
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10011995	0.86[TSI][hapmap];0.80[EUR][1000 genomes]
rs10015095	0.80[EUR][1000 genomes]
rs10023159	0.82[EUR][1000 genomes]
rs11722703	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11725619	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11734047	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11734084	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17828396	0.84[CEU][hapmap];0.86[EUR][1000 genomes]
rs186750	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.86[GIH][hapmap];0.81[MKK][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28716290	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs335299	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs335300	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs335306	0.87[ASW][hapmap];0.91[CHD][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs335307	0.81[AFR][1000 genomes]
rs335310	0.81[AFR][1000 genomes]
rs335312	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs335313	0.81[AFR][1000 genomes]
rs335314	0.87[ASW][hapmap];0.91[CHD][hapmap];1.00[YRI][hapmap]
rs335315	0.87[ASW][hapmap];0.91[CHD][hapmap];1.00[YRI][hapmap]
rs335316	0.81[AFR][1000 genomes]
rs335317	0.87[ASW][hapmap];0.91[CHD][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs335318	0.81[AFR][1000 genomes]
rs335319	0.81[AFR][1000 genomes]
rs335323	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4860095	1.00[CEU][hapmap];0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs57188639	0.83[EUR][1000 genomes]
rs6841637	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs9312079	0.84[EUR][1000 genomes]
rs9992329	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9994628	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9994639	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv868844	chr4:62241702-62497248	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv2753138	chr4:62271444-62442507	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv461377	chr4:62368762-62883431	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv594328	chr4:62368762-62883431	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1004815	chr4:62398737-62553769	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv537110	chr4:62398737-62553769	ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62404800-62408000	Enhancers	Fetal Intestine Small	intestine
2	chr4:62405400-62408400	Enhancers	Fetal Intestine Large	intestine
3	chr4:62406000-62407600	Enhancers	Rectal Mucosa Donor 29	rectum
4	chr4:62406200-62407600	Enhancers	Fetal Heart	heart
5	chr4:62406400-62407000	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr4:62406400-62407000	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr4:62406400-62407400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr4:62406400-62407400	Enhancers	Duodenum Mucosa	Duodenum
9	chr4:62406400-62407600	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr4:62406400-62408000	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr4:62406600-62407000	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr4:62406600-62407000	Enhancers	Fetal Lung	lung
13	chr4:62406600-62407400	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr4:62406600-62407400	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr4:62406600-62407400	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr4:62406600-62407600	Enhancers	HepG2	liver
17	chr4:62406800-62407000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr4:62406800-62407000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr4:62406800-62407200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr4:62406800-62407400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr4:62406800-62407600	Enhancers	Sigmoid Colon	Sigmoid Colon
22	chr4:62406800-62407800	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links