Variant report

Variant	rs34089128
Chromosome Location	chr10:91548827-91548828
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10785907	0.80[EUR][1000 genomes]
rs10881632	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10881657	0.80[EUR][1000 genomes]
rs10881666	0.80[EUR][1000 genomes]
rs10881667	0.80[EUR][1000 genomes]
rs10881668	0.80[EUR][1000 genomes]
rs10881669	0.80[EUR][1000 genomes]
rs10881670	0.80[EUR][1000 genomes]
rs10982	0.80[EUR][1000 genomes]
rs11185867	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11185878	0.80[EUR][1000 genomes]
rs11185879	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11185880	0.80[EUR][1000 genomes]
rs11185881	0.80[EUR][1000 genomes]
rs11185884	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11185886	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11185889	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11185890	0.82[EUR][1000 genomes]
rs11185892	0.90[EUR][1000 genomes]
rs11813204	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11813214	0.80[EUR][1000 genomes]
rs11816741	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12243552	0.80[EUR][1000 genomes]
rs12253793	0.80[EUR][1000 genomes]
rs12254296	0.80[EUR][1000 genomes]
rs12264026	0.80[EUR][1000 genomes]
rs12763178	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12767644	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12773740	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12773865	0.82[ASN][1000 genomes]
rs12776628	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12948	0.80[EUR][1000 genomes]
rs2026550	0.82[EUR][1000 genomes]
rs35754486	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4126596	0.80[EUR][1000 genomes]
rs61872460	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7070916	0.82[ASN][1000 genomes]
rs7074093	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7081362	0.80[EUR][1000 genomes]
rs7095702	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7096826	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs735936	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7896461	0.80[EUR][1000 genomes]
rs7914590	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7919866	0.80[EUR][1000 genomes]
rs7921817	0.80[EUR][1000 genomes]
rs8181406	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046241	chr10:91478562-91614437	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv869080	chr10:91498641-91712834	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1036581	chr10:91526705-91691536	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv948132	chr10:91546180-91550682	Weak transcription Bivalent Enhancer Enhancers Active TSS	n/a	n/a	inside rSNPs	n/a
5	esv3337343	chr10:91546722-91549420	Enhancers Weak transcription Bivalent Enhancer Active TSS	n/a	n/a	inside rSNPs	n/a

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs34089128	LINC00865	cis	Nerve Tibial	GTEx
rs34089128	RP11-248C1.3	cis	Artery Tibial	GTEx
rs34089128	LINC00865	cis	Artery Tibial	GTEx

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91506400-91549000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:91506600-91554200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr10:91523000-91549400	Weak transcription	Adipose Nuclei	Adipose
4	chr10:91523400-91549000	Weak transcription	K562	blood
5	chr10:91529600-91549000	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr10:91533200-91554400	Weak transcription	NHEK	skin
7	chr10:91540600-91554200	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr10:91540800-91549600	Weak transcription	Lung	lung
9	chr10:91540800-91554000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr10:91541000-91549000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr10:91541200-91549000	Weak transcription	Primary hematopoietic stem cells	blood
12	chr10:91541200-91549200	Weak transcription	Fetal Muscle Trunk	muscle
13	chr10:91541200-91552000	Weak transcription	HMEC	breast
14	chr10:91541200-91554800	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr10:91541400-91549000	Weak transcription	Fetal Thymus	thymus
16	chr10:91541400-91549200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr10:91541400-91550200	Weak transcription	Fetal Intestine Small	intestine
18	chr10:91541400-91560000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr10:91541600-91549000	Weak transcription	Thymus	Thymus
20	chr10:91541600-91552200	Weak transcription	Hela-S3	cervix
21	chr10:91541600-91554000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr10:91542600-91554000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr10:91544400-91549000	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr10:91544600-91554000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr10:91547600-91549000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr10:91548800-91549200	Enhancers	Primary T cells from cord blood	blood
27	chr10:91548800-91549200	Enhancers	Dnd41	blood

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