Variant report

Variant	rs61896899
Chromosome Location	chr11:3804579-3804580
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:3802798..3805152-chr11:3817253..3819488,4	K562	blood:

Variant related genes	Relation type
ENSG00000110713	Chromatin interaction
ENSG00000148985	Chromatin interaction

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs1567923	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929762	1.00[EUR][1000 genomes]
rs16929785	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35803045	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4910530	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4910549	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910565	1.00[EUR][1000 genomes]
rs4910654	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4910665	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4910695	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4910710	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4910711	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4910712	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4910797	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4910798	1.00[EUR][1000 genomes]
rs4910799	1.00[EUR][1000 genomes]
rs4910800	1.00[EUR][1000 genomes]
rs4910805	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4910806	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4910808	1.00[EUR][1000 genomes]
rs4910810	1.00[EUR][1000 genomes]
rs4910811	1.00[EUR][1000 genomes]
rs56702085	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59617039	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60726516	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61508984	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61751339	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877577	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs61877578	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877579	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61877580	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs61877581	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877582	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877583	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877584	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877592	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877594	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877595	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877596	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877597	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877598	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61877601	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61877602	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61877604	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61877626	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61877627	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61877628	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61877629	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877630	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877631	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877632	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61879797	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61879798	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61879799	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61879800	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61879801	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61879830	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61879831	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61879832	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61879982	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61879984	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61896888	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896889	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61896890	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896891	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896892	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896893	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896894	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896897	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896898	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896900	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896901	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896917	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61896918	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61896919	1.00[EUR][1000 genomes]
rs61896920	1.00[EUR][1000 genomes]
rs61896921	1.00[EUR][1000 genomes]
rs61896922	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61896923	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61896925	0.98[EUR][1000 genomes]
rs7118870	1.00[EUR][1000 genomes]
rs7122294	0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049560	chr11:3678259-3980746	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv540907	chr11:3678259-3980746	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1052744	chr11:3739162-4017601	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer 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	29 gene(s)	inside rSNPs	diseases
4	nsv1047025	chr11:3750969-4017601	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:3685600-3805600	Strong transcription	Fetal Thymus	thymus
2	chr11:3687000-3805600	Strong transcription	Dnd41	blood
3	chr11:3732400-3808000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr11:3739400-3817600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr11:3780200-3808000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr11:3780600-3817000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr11:3786800-3816000	Weak transcription	Stomach Mucosa	stomach
8	chr11:3791200-3813200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr11:3793800-3816800	Weak transcription	Fetal Heart	heart
10	chr11:3793800-3817000	Weak transcription	Fetal Brain Male	brain
11	chr11:3798400-3804600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr11:3800000-3808400	Weak transcription	Psoas Muscle	Psoas
13	chr11:3800400-3806400	Weak transcription	Brain Substantia Nigra	brain
14	chr11:3800400-3806600	Weak transcription	Brain Cingulate Gyrus	brain
15	chr11:3800400-3806600	Weak transcription	Gastric	stomach
16	chr11:3800400-3806600	Weak transcription	Spleen	Spleen
17	chr11:3800400-3807200	Weak transcription	Brain Angular Gyrus	brain
18	chr11:3800400-3807200	Weak transcription	Brain Hippocampus Middle	brain
19	chr11:3800400-3807400	Weak transcription	NH-A	brain
20	chr11:3800400-3808400	Weak transcription	Pancreas	Pancrea
21	chr11:3800400-3812800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr11:3800400-3813200	Weak transcription	Stomach Smooth Muscle	stomach
23	chr11:3800400-3813400	Weak transcription	Fetal Kidney	kidney
24	chr11:3800400-3816400	Weak transcription	Rectal Smooth Muscle	rectum
25	chr11:3800400-3816400	Weak transcription	Small Intestine	intestine
26	chr11:3800400-3817000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr11:3800400-3817600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr11:3800600-3805400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr11:3800600-3807800	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr11:3800600-3807800	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr11:3800600-3813400	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr11:3800600-3816400	Weak transcription	Colonic Mucosa	Colon
33	chr11:3800600-3817000	Weak transcription	HSMMtube	muscle
34	chr11:3800600-3817200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr11:3800800-3808400	Weak transcription	Right Ventricle	heart
36	chr11:3801000-3805200	Weak transcription	Primary B cells from cord blood	blood
37	chr11:3801000-3807800	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr11:3801200-3808000	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr11:3801400-3812800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr11:3801600-3813800	Weak transcription	Fetal Brain Female	brain
41	chr11:3801800-3810400	Enhancers	Primary hematopoietic stem cells	blood
42	chr11:3802000-3807800	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr11:3802200-3804600	Enhancers	NHLF	lung
44	chr11:3802200-3804800	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
45	chr11:3802200-3813200	Weak transcription	Fetal Muscle Trunk	muscle
46	chr11:3802400-3804800	Weak transcription	Fetal Muscle Leg	muscle
47	chr11:3802400-3804800	Strong transcription	HepG2	liver
48	chr11:3802400-3805600	Enhancers	Primary neutrophils fromperipheralblood	blood
49	chr11:3802400-3805600	Weak transcription	Fetal Lung	lung
50	chr11:3802400-3806400	Weak transcription	H9 Cell Line	embryonic stem cell

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