Variant report

Variant	rs13431410
Chromosome Location	chr2:100113720-100113721
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:100106165..100109340-chr2:100112910..100115092,3	K562	blood:

Variant related genes	Relation type
ENSG00000135945	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10173883	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10175852	0.87[EUR][1000 genomes]
rs10176205	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10179435	0.86[EUR][1000 genomes]
rs10179697	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10180138	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs10180688	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];0.84[EUR][1000 genomes]
rs10182492	0.80[CEU][hapmap];0.91[YRI][hapmap]
rs10186223	0.88[CEU][hapmap];1.00[CHB][hapmap];0.86[EUR][1000 genomes]
rs10191001	1.00[CHB][hapmap]
rs10207435	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs10210257	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs10210346	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs10496337	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[YRI][hapmap];0.86[EUR][1000 genomes]
rs11123784	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap]
rs12623835	0.88[CEU][hapmap];0.85[YRI][hapmap]
rs12992356	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs13028722	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap]
rs13384665	1.00[CHB][hapmap]
rs13401163	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];0.84[EUR][1000 genomes]
rs13402784	0.90[YRI][hapmap]
rs13405400	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13409359	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap];0.86[EUR][1000 genomes]
rs13415713	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[YRI][hapmap];0.88[EUR][1000 genomes]
rs13416265	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[YRI][hapmap];0.85[EUR][1000 genomes]
rs13419448	0.80[CEU][hapmap];1.00[CHB][hapmap];0.91[YRI][hapmap];0.86[EUR][1000 genomes]
rs13420087	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13420293	0.80[CEU][hapmap];0.91[YRI][hapmap]
rs13426758	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[YRI][hapmap];0.84[EUR][1000 genomes]
rs13427424	0.85[EUR][1000 genomes]
rs13429185	0.89[CEU][hapmap];1.00[CHB][hapmap];0.86[YRI][hapmap];0.84[EUR][1000 genomes]
rs13429806	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs13430962	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13432046	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs1376444	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17022653	0.80[CEU][hapmap];0.91[YRI][hapmap]
rs17022663	0.80[CEU][hapmap];0.91[YRI][hapmap]
rs1882598	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap]
rs1922625	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs2309577	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap]
rs28369949	0.85[EUR][1000 genomes]
rs28382945	0.84[EUR][1000 genomes]
rs28382947	0.84[EUR][1000 genomes]
rs28745279	0.84[EUR][1000 genomes]
rs3087399	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs3792151	0.90[YRI][hapmap]
rs3828162	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[YRI][hapmap]
rs6712137	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap]
rs6726711	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[YRI][hapmap]
rs72817011	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7569805	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap]
rs7579143	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap]
rs7582085	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[EUR][1000 genomes]
rs7582133	0.89[CEU][hapmap];1.00[CHB][hapmap];0.90[YRI][hapmap];0.86[EUR][1000 genomes]
rs7585532	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7599384	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap]
rs9308819	0.88[CEU][hapmap];1.00[CHB][hapmap];0.90[YRI][hapmap];0.84[EUR][1000 genomes]
rs9308821	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs9308822	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9308823	0.85[AMR][1000 genomes];0.88[EUR][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	nsv431424	chr2:99652682-100494682	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv962113	chr2:100022168-100317461	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	esv1806302	chr2:100094799-100123030	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100107600-100119600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr2:100112800-100115600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr2:100113600-100114000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:100113600-100119600	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links