Variant report

Variant	rs60177040
Chromosome Location	chr2:52785379-52785380
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 117 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs4254540	0.90[AFR][1000 genomes]
rs55769245	1.00[AMR][1000 genomes]
rs55821513	1.00[AMR][1000 genomes]
rs56261895	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56781566	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72882609	0.93[AFR][1000 genomes]
rs72882630	1.00[AMR][1000 genomes]
rs72882665	1.00[AMR][1000 genomes]
rs72882675	1.00[AMR][1000 genomes]
rs72884219	1.00[AMR][1000 genomes]
rs72884222	1.00[AMR][1000 genomes]
rs72886066	1.00[AMR][1000 genomes]
rs72886073	0.85[AMR][1000 genomes]
rs73931382	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:103 , 50 per page) page: 1 2 3

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009513	chr2:51890060-52821980	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv1007633	chr2:52217555-52862389	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv535714	chr2:52217555-52862389	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv874111	chr2:52383698-52962055	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
5	nsv1014619	chr2:52496317-52821980	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv535717	chr2:52496317-52821980	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv998227	chr2:52527889-52821980	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	esv1831158	chr2:52692840-52785972	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	esv2754871	chr2:52695749-52922949	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv999698	chr2:52720976-52851561	ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv2728	chr2:52725177-52807896	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv834036	chr2:52727240-52916200	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	esv2757797	chr2:52727380-52814537	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	esv2759049	chr2:52727380-52814537	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
15	nsv874125	chr2:52735368-52851073	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
16	nsv1011241	chr2:52736181-52794130	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv1007294	chr2:52737183-52794130	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv581931	chr2:52737658-52797840	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv1009301	chr2:52738012-52794130	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	diseases
20	esv1800225	chr2:52739028-52790493	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
21	esv2755042	chr2:52739102-52883790	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
22	esv3584758	chr2:52739180-52792828	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	diseases
23	esv1821464	chr2:52741737-52785554	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
24	nsv1000629	chr2:52743925-52787949	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
25	nsv1000354	chr2:52743925-52792112	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
26	esv3509659	chr2:52745350-52786654	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
27	esv3509660	chr2:52745350-52786654	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
28	esv1824551	chr2:52745557-52785554	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
29	nsv508142	chr2:52748125-52786769	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
30	esv1830104	chr2:52748253-52785666	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases
31	esv3485768	chr2:52748350-52786654	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
32	esv1823366	chr2:52748425-52785554	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
33	esv3485770	chr2:52748973-52786296	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
34	esv1824788	chr2:52749119-52791964	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
35	esv3457723	chr2:52749157-52785506	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
36	nsv435718	chr2:52749412-52786448	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
37	esv3485772	chr2:52749500-52785683	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases
38	nsv9769	chr2:52749567-52785671	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
39	esv3485771	chr2:52749586-52785382	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
40	nsv829386	chr2:52749642-52785728	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
41	esv33556	chr2:52749744-52785841	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
42	esv1817675	chr2:52749863-52785456	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
43	esv1817755	chr2:52749863-52785456	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
44	esv1828975	chr2:52749863-52785456	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
45	nsv581946	chr2:52749863-52785456	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
46	esv1808460	chr2:52749880-52786101	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
47	esv1818092	chr2:52749880-52786101	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
48	esv1828709	chr2:52749880-52786101	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
49	esv1819738	chr2:52750521-52789214	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
50	esv1821370	chr2:52751552-52785456	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:52784600-52786200	Enhancers	HUES48 Cell Line	embryonic stem cell
2	chr2:52784800-52786200	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr2:52784800-52786400	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr2:52785000-52785400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
5	chr2:52785000-52786200	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr2:52785200-52785400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr2:52785200-52785600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
8	chr2:52785200-52785800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:52785200-52785800	Enhancers	H9 Cell Line	embryonic stem cell
10	chr2:52785200-52786000	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr2:52785200-52786000	Enhancers	Cortex derived primary cultured neurospheres	brain

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