Variant report

Variant	rs61889805
Chromosome Location	chr11:58710208-58710209
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr11:58710158-58710208	RPTEC	kidney:	n/a
2	chr11:58710158-58710208	LNCaP	prostate:	n/a
3	chr11:58710158-58710208	GM12892	blood:	n/a
4	chr11:58710158-58710208	Hela-S3	cervix:	n/a
5	chr11:58710158-58710208	HCT-116	colon:	n/a
6	chr11:58710158-58710208	GM12878	blood:	n/a
7	chr11:58710158-58710208	PFSK-1	brain:	n/a
8	chr11:58710158-58710208	PrEC	prostate:	n/a
9	chr11:58710158-58710208	SKMC	muscle:	n/a
10	chr11:58710158-58710208	HAEpiC	amniotic membrane:	n/a
11	chr11:58710158-58710208	HRPEpiC	eye:	n/a
12	chr11:58710158-58710208	NT2-D1	testis:	n/a
13	chr11:58710158-58710208	AG04449	skin:	fetal
14	chr11:58710158-58710208	ovcar-3	ovarian:	n/a
15	chr11:58710158-58710208	HepG2	liver:	n/a
16	chr11:58710158-58710208	K562	blood:	n/a
17	chr11:58710158-58710208	Caco-2	colon:	n/a
18	chr11:58710158-58710208	HCM	heart:	n/a
19	chr11:58710158-58710208	AG09319	gingival:	n/a
20	chr11:58710158-58710208	ECC-1	luminal epithelium:	n/a
21	chr11:58710158-58710208	HEK293	kidney:	embryo
22	chr11:58710158-58710208	HPAEpiC	pulmonary alveolar:	n/a
23	chr11:58710158-58710208	HNPCEpiC	eye:	n/a
24	chr11:58710158-58710208	NB4	blood:	n/a
25	chr11:58710158-58710208	SK-N-SH_RA	brain:	n/a
26	chr11:58710158-58710208	ProgFib	skin:	n/a
27	chr11:58710158-58710208	BE2_C	brain:	n/a
28	chr11:58710158-58710208	AG04450	lung:	fetal
29	chr11:58710158-58710208	AG09309	skin:	n/a
30	chr11:58710158-58710208	A549	lung:	n/a
31	chr11:58710158-58710208	PANC-1	pancreas:	n/a
32	chr11:58710158-58710208	HMEC	breast:	n/a
33	chr11:58710158-58710208	GM06990	blood:	n/a
34	chr11:58710158-58710208	SK-N-MC	brain:	n/a
35	chr11:58710158-58710208	HRE	kidney:	n/a
36	chr11:58710158-58710208	Hepatocyte	liver:	n/a
37	chr11:58710158-58710208	HUVEC	blood vessel:	n/a
38	chr11:58710158-58710208	HEEpiC	esophagus:	n/a
39	chr11:58710158-58710208	SK-N-SH	brain:	n/a
40	chr11:58710158-58710208	MCF10A-Er-Src	breast:	n/a
41	chr11:58710158-58710208	GM12891	blood:	n/a
42	chr11:58710158-58710208	NHBE	bronchial:	n/a
43	chr11:58710158-58710208	BJ	skin:	n/a
44	chr11:58710158-58710208	H1-hESC	embryonic stem cell:	embryo
45	chr11:58710158-58710208	IMR90	lung:	fetal
46	chr11:58710158-58710208	HL-60	blood:	n/a
47	chr11:58710158-58710208	NHDF-neo	bronchial:	n/a
48	chr11:58710158-58710208	GM19239	blood:	n/a
49	chr11:58710158-58710208	NH-A	brain:	n/a
50	chr11:58710158-58710208	HIPEpiC	eye:	n/a

No data

Variant related genes	Relation type
GLYATL1	CpG island

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10792206	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10792207	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10792209	0.82[AFR][1000 genomes]
rs10896872	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896873	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896874	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896875	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896876	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896877	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896878	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896879	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10896880	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10896882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10896883	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896884	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896885	0.84[AFR][1000 genomes]
rs11229687	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11229688	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11229689	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11229692	0.84[ASN][1000 genomes]
rs11229693	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11229694	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11229695	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11229701	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229704	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229705	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229708	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11229711	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11229713	0.84[AFR][1000 genomes]
rs11229714	0.84[AFR][1000 genomes]
rs12222597	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12223443	0.81[ASN][1000 genomes]
rs12270298	0.86[EUR][1000 genomes]
rs12272494	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12277628	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12278662	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12281983	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12292314	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1808064	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1815856	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1893627	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1893628	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1893629	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1938786	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1938791	0.82[AFR][1000 genomes]
rs1943264	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2156344	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2156345	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2156349	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3740950	0.82[ASN][1000 genomes]
rs4271397	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4547111	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4573693	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4939243	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56155456	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58848038	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61889804	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892604	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7108461	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7118637	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7126489	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7129011	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73483072	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7930111	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7939049	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs948818	0.81[ASN][1000 genomes]
rs948819	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9787921	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050013	chr11:58394598-59221090	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv948365	chr11:58515163-59156405	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	esv3444895	chr11:58614102-58779384	Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	esv3502182	chr11:58668199-58731237	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv3502181	chr11:58668236-58731215	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv3478019	chr11:58668282-58731214	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	esv3478030	chr11:58668282-58731214	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	esv3502183	chr11:58668353-58731177	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	esv3393019	chr11:58679419-58880845	Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
10	nsv428258	chr11:58700092-58878839	Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
11	esv2758272	chr11:58700092-59008673	Bivalent/Poised TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
12	esv2759830	chr11:58700092-59008673	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
13	nsv832169	chr11:58700097-58861680	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 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	chr11:58703000-58712800	Weak transcription	Fetal Intestine Small	intestine
2	chr11:58708400-58712600	Weak transcription	HepG2	liver
3	chr11:58709000-58710600	Flanking Active TSS	Liver	Liver
4	chr11:58709800-58712800	Weak transcription	Fetal Intestine Large	intestine

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