Variant report

Variant	rs4944945
Chromosome Location	chr11:74440582-74440583
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10899040	0.95[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.92[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12363224	0.92[YRI][hapmap]
rs1282460	0.92[YRI][hapmap]
rs1433770	0.83[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.92[JPT][hapmap];0.85[MEX][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1583342	0.87[LWK][hapmap];0.81[MKK][hapmap];0.92[YRI][hapmap]
rs1944936	0.87[CEU][hapmap];0.82[JPT][hapmap]
rs1944937	0.86[CEU][hapmap];0.81[JPT][hapmap]
rs471462	0.85[YRI][hapmap]
rs480840	0.87[LWK][hapmap];0.87[MKK][hapmap];0.83[YRI][hapmap]
rs502225	0.82[AFR][1000 genomes]
rs505688	0.83[LWK][hapmap];0.81[MKK][hapmap];0.92[YRI][hapmap]
rs512780	0.83[LWK][hapmap];0.87[MKK][hapmap];0.83[YRI][hapmap]
rs513137	0.92[YRI][hapmap];0.82[AFR][1000 genomes]
rs527529	0.92[YRI][hapmap]
rs538502	0.91[YRI][hapmap]
rs550491	0.88[YRI][hapmap]
rs561589	0.83[YRI][hapmap]
rs568558	0.91[YRI][hapmap]
rs577102	0.83[YRI][hapmap];0.80[AFR][1000 genomes]
rs580142	0.82[AFR][1000 genomes]
rs625268	0.92[YRI][hapmap]
rs7935154	0.87[CEU][hapmap];0.82[JPT][hapmap]
rs7941425	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9444	0.87[LWK][hapmap];0.92[YRI][hapmap]
rs948517	0.82[JPT][hapmap]

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	esv2757451	chr11:73842609-74545888	Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	esv2759837	chr11:73842609-74557597	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	esv34979	chr11:73878688-74533452	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	esv2758277	chr11:73887567-74557597	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv825994	chr11:73936667-74534455	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
6	nsv932190	chr11:74359867-74618935	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4944945	XRRA1	Cis_1M	lymphoblastoid	RTeQTL
rs4944945	RNF169	cis	multi-tissue	Pritchard

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:74432800-74442000	Weak transcription	Right Atrium	heart
2	chr11:74432800-74442000	Weak transcription	Spleen	Spleen
3	chr11:74434800-74442000	Weak transcription	Brain Angular Gyrus	brain
4	chr11:74438000-74441000	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr11:74438000-74442000	Weak transcription	Brain Anterior Caudate	brain
6	chr11:74438000-74442000	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr11:74440200-74440600	Bivalent Enhancer	Fetal Intestine Large	intestine
8	chr11:74440200-74441000	Enhancers	Rectal Smooth Muscle	rectum
9	chr11:74440200-74441000	Bivalent Enhancer	HepG2	liver
10	chr11:74440200-74441400	Enhancers	Colon Smooth Muscle	Colon

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