Variant report

Variant	rs56174957
Chromosome Location	chr12:20813433-20813434
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12580616	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12580628	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12581970	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1399937	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1399938	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3794270	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3809208	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs59508686	0.81[EUR][1000 genomes]
rs60480171	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61579575	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61623220	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6487131	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6487132	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67017312	0.81[EUR][1000 genomes]
rs72658756	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72658759	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72658760	0.81[EUR][1000 genomes]
rs72658761	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7296571	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7303066	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7310399	0.81[EUR][1000 genomes]
rs7314545	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7316120	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73240436	0.81[EUR][1000 genomes]
rs73240441	0.81[EUR][1000 genomes]
rs74065151	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74065172	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs74065173	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs74066232	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74066238	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74066258	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7956705	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7960786	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7970439	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7970863	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7971656	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7975280	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7978760	0.81[EUR][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	nsv1048067	chr12:20363755-20874845	Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv541408	chr12:20363755-20874845	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1043890	chr12:20659151-21309993	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv541410	chr12:20659151-21309993	Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv1054997	chr12:20682009-21292602	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:20768000-20813600	Weak transcription	Colonic Mucosa	Colon
2	chr12:20784800-20816000	Weak transcription	Osteobl	bone
3	chr12:20808800-20815800	Weak transcription	Right Ventricle	heart
4	chr12:20809000-20814400	Weak transcription	Aorta	Aorta
5	chr12:20809000-20814400	Weak transcription	Pancreas	Pancrea
6	chr12:20810000-20814200	Weak transcription	HUVEC	blood vessel
7	chr12:20811000-20813600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr12:20812200-20817000	ZNF genes & repeats	Fetal Intestine Large	intestine
9	chr12:20812400-20816400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
10	chr12:20812400-20817200	ZNF genes & repeats	Fetal Intestine Small	intestine
11	chr12:20812400-20818200	ZNF genes & repeats	Fetal Muscle Leg	muscle
12	chr12:20812600-20813600	ZNF genes & repeats	Hela-S3	cervix
13	chr12:20812600-20813800	ZNF genes & repeats	Stomach Smooth Muscle	stomach
14	chr12:20812600-20814000	Strong transcription	Duodenum Smooth Muscle	Duodenum
15	chr12:20812600-20815800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
16	chr12:20812600-20817000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr12:20812600-20817000	ZNF genes & repeats	Fetal Muscle Trunk	muscle
18	chr12:20812600-20817200	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
19	chr12:20812600-20817600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
20	chr12:20812600-20817800	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
21	chr12:20812600-20819400	Strong transcription	Left Ventricle	heart
22	chr12:20812800-20813600	Strong transcription	Fetal Kidney	kidney
23	chr12:20812800-20813600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
24	chr12:20812800-20815000	Strong transcription	Fetal Stomach	stomach
25	chr12:20813000-20813600	ZNF genes & repeats	Colon Smooth Muscle	Colon
26	chr12:20813000-20813600	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
27	chr12:20813000-20814600	Strong transcription	Rectal Smooth Muscle	rectum
28	chr12:20813000-20815800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr12:20813200-20813800	Weak transcription	Fetal Brain Male	brain

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