Variant report

Variant	rs72905863
Chromosome Location	chr2:38786143-38786144
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:38779577..38781346-chr2:38785397..38787246,2	K562	blood:
2	chr2:38786011..38787740-chr2:38976954..38979344,3	K562	blood:
3	chr2:38783818..38787523-chr2:38967718..38971056,4	K562	blood:
4	chr2:38781921..38784416-chr2:38785346..38789078,4	K562	blood:

Variant related genes	Relation type
ENSG00000152147	Chromatin interaction
ENSG00000115875	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1543880	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17022945	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2304005	1.00[ASN][1000 genomes]
rs3213852	1.00[ASN][1000 genomes]
rs41446253	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55785223	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs55833813	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs55957936	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56251362	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56956410	0.87[AMR][1000 genomes]
rs58441205	1.00[ASN][1000 genomes]
rs59114683	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60475078	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6544167	1.00[ASN][1000 genomes]
rs6727765	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6732384	0.85[AMR][1000 genomes]
rs6732743	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72895897	0.87[AMR][1000 genomes]
rs72897608	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72897610	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72905831	0.80[AFR][1000 genomes]
rs72905837	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72905839	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs72905843	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72905844	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72905847	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72905860	0.98[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72905861	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72905868	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72905869	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72905871	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72905880	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72905899	1.00[ASN][1000 genomes]
rs73929040	0.87[AMR][1000 genomes]
rs73929050	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs73929059	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73929077	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73931606	0.85[AMR][1000 genomes]
rs7579589	0.85[AMR][1000 genomes]
rs7594264	0.85[AMR][1000 genomes]
rs9789532	1.00[ASN][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	nsv916059	chr2:38332341-39119398	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	143 gene(s)	inside rSNPs	diseases
2	nsv9646	chr2:38358311-39082189	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	141 gene(s)	inside rSNPs	diseases
3	nsv873881	chr2:38745624-38877636	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	esv1796304	chr2:38766721-38790750	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:38763600-38809600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr2:38768200-38812800	Weak transcription	Psoas Muscle	Psoas
3	chr2:38768400-38787800	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr2:38768400-38788000	Weak transcription	Fetal Muscle Trunk	muscle
5	chr2:38768400-38791600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr2:38769000-38793200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr2:38769200-38787800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr2:38769200-38788400	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr2:38770000-38788600	Weak transcription	Colon Smooth Muscle	Colon
10	chr2:38770400-38786600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr2:38770400-38787200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr2:38770400-38787200	Weak transcription	Duodenum Mucosa	Duodenum
13	chr2:38770400-38787200	Weak transcription	Fetal Intestine Large	intestine
14	chr2:38770400-38787200	Weak transcription	NHLF	lung
15	chr2:38770400-38787200	Weak transcription	Osteobl	bone
16	chr2:38770400-38787400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr2:38770400-38787400	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr2:38770400-38791000	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr2:38770400-38794600	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr2:38770600-38787400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr2:38770600-38794800	Weak transcription	NHEK	skin
22	chr2:38770800-38794400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr2:38771000-38786200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr2:38771200-38787200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr2:38771200-38787400	Weak transcription	HUVEC	blood vessel
26	chr2:38772800-38787400	Weak transcription	HepG2	liver
27	chr2:38775800-38821800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr2:38776400-38787400	Weak transcription	Fetal Kidney	kidney
29	chr2:38776600-38787200	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr2:38776600-38787400	Weak transcription	Placenta	Placenta
31	chr2:38776600-38788000	Weak transcription	Brain Germinal Matrix	brain
32	chr2:38776600-38791000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr2:38776800-38787200	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr2:38776800-38787200	Weak transcription	Fetal Lung	lung
35	chr2:38776800-38787400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr2:38776800-38788800	Weak transcription	Fetal Brain Male	brain
37	chr2:38777000-38787200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr2:38777000-38794600	Weak transcription	Brain Anterior Caudate	brain
39	chr2:38777000-38807200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr2:38777200-38787200	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr2:38777200-38794200	Weak transcription	Ovary	ovary
42	chr2:38777400-38792600	Weak transcription	Thymus	Thymus
43	chr2:38777600-38787200	Weak transcription	A549	lung
44	chr2:38777600-38787400	Weak transcription	HMEC	breast
45	chr2:38778200-38787200	Weak transcription	Left Ventricle	heart
46	chr2:38778200-38791400	Weak transcription	Fetal Intestine Small	intestine
47	chr2:38778200-38794200	Weak transcription	Lung	lung
48	chr2:38778600-38787200	Weak transcription	Fetal Muscle Leg	muscle
49	chr2:38779000-38791400	Weak transcription	Fetal Stomach	stomach
50	chr2:38779000-38818200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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