Variant report

Variant	rs490410
Chromosome Location	chr11:34848904-34848905
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:34832979..34835085-chr11:34846978..34849225,2	K562	blood:
2	chr11:34830057..34832042-chr11:34848126..34850634,2	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10742324	0.84[ASN][1000 genomes]
rs10768101	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1396884	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1605879	0.87[ASN][1000 genomes]
rs1813690	0.87[ASN][1000 genomes]
rs474636	0.97[ASN][1000 genomes]
rs4756172	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs484717	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs486710	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs494170	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs497837	0.97[ASN][1000 genomes]
rs504186	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs506444	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs508062	0.80[AFR][1000 genomes]
rs508324	0.94[ASN][1000 genomes]
rs508536	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs513051	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs514220	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs515987	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs519858	0.97[ASN][1000 genomes]
rs522585	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs523246	0.93[YRI][hapmap];0.82[AFR][1000 genomes]
rs535054	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs535744	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs542156	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs563603	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs571164	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6484732	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs704749	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7109762	0.87[ASN][1000 genomes]
rs7110293	0.87[ASN][1000 genomes]
rs7130756	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832118	chr11:34743123-34903951	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv832119	chr11:34815528-35009370	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 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	chr11:34844800-34849400	Enhancers	Stomach Mucosa	stomach
2	chr11:34845000-34849400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr11:34845400-34849400	Enhancers	Rectal Mucosa Donor 29	rectum
4	chr11:34845600-34849000	Weak transcription	Liver	Liver
5	chr11:34846000-34849000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr11:34847000-34849200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr11:34847000-34852000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr11:34847200-34858400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr11:34847400-34852200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr11:34847600-34851600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr11:34847600-34851600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr11:34847600-34852000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr11:34847800-34849200	Enhancers	GM12878-XiMat	blood
14	chr11:34847800-34851800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr11:34848000-34849400	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr11:34848000-34849600	Enhancers	HepG2	liver
17	chr11:34848200-34849200	Weak transcription	Fetal Intestine Small	intestine
18	chr11:34848200-34854400	Weak transcription	Esophagus	oesophagus
19	chr11:34848600-34849000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr11:34848600-34849000	Weak transcription	Fetal Intestine Large	intestine
21	chr11:34848800-34851400	Weak transcription	K562	blood
22	chr11:34848800-34851600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links