Variant report

Variant	rs58441205
Chromosome Location	chr2:38807306-38807307
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:38806174..38811270-chr2:38966687..38973672,10	K562	blood:
2	chr2:38805174..38810149-chr2:38974397..38979817,14	K562	blood:
3	chr2:38807225..38809516-chr2:38810763..38812911,2	MCF-7	breast:
4	chr2:38794380..38796930-chr2:38807297..38810319,3	MCF-7	breast:
5	chr2:38802059..38810352-chr2:38974835..38979723,14	K562	blood:
6	chr2:38806398..38808518-chr2:38977015..38979696,2	MCF-7	breast:
7	chr2:38806069..38807840-chr2:38828104..38829708,2	MCF-7	breast:
8	chr2:38807176..38809738-chr2:38829529..38831599,2	MCF-7	breast:
9	chr2:38749021..38751091-chr2:38805998..38807763,2	K562	blood:
10	chr2:38600866..38603668-chr2:38806016..38808149,2	K562	blood:
11	chr2:38806614..38812442-chr2:38966843..38970976,5	K562	blood:
12	chr2:38788831..38791185-chr2:38805225..38808104,2	K562	blood:
13	chr2:38801102..38805914-chr2:38807147..38811065,7	MCF-7	breast:
14	chr2:38805850..38810073-chr2:38814750..38818900,5	MCF-7	breast:
15	chr2:38806248..38808565-chr2:38954475..38956582,2	K562	blood:
16	chr2:38805216..38808046-chr2:38947623..38949999,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000152147	Chromatin interaction
ENSG00000235586	Chromatin interaction
ENSG00000119787	Chromatin interaction
ENSG00000143889	Chromatin interaction
ENSG00000115875	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs2304005	1.00[ASN][1000 genomes]
rs3213852	1.00[ASN][1000 genomes]
rs55957936	1.00[ASN][1000 genomes]
rs56251362	1.00[ASN][1000 genomes]
rs59114683	1.00[ASN][1000 genomes]
rs6544167	1.00[ASN][1000 genomes]
rs6727765	1.00[ASN][1000 genomes]
rs6732743	1.00[ASN][1000 genomes]
rs72897608	1.00[ASN][1000 genomes]
rs72905837	1.00[ASN][1000 genomes]
rs72905847	1.00[ASN][1000 genomes]
rs72905860	1.00[ASN][1000 genomes]
rs72905861	1.00[ASN][1000 genomes]
rs72905863	1.00[ASN][1000 genomes]
rs72905868	1.00[ASN][1000 genomes]
rs72905869	1.00[ASN][1000 genomes]
rs72905871	1.00[ASN][1000 genomes]
rs72905899	1.00[ASN][1000 genomes]
rs73929050	0.82[ASN][1000 genomes]
rs9789532	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv581482	chr2:38799820-38858669	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv581483	chr2:38799820-38862223	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv581484	chr2:38799820-38874177	Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 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	chr2:38775800-38821800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr2:38779000-38818200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr2:38779400-38821800	Weak transcription	Right Ventricle	heart
6	chr2:38779600-38807400	Weak transcription	Fetal Heart	heart
7	chr2:38779600-38812800	Weak transcription	Aorta	Aorta
8	chr2:38781200-38827600	Weak transcription	Esophagus	oesophagus
9	chr2:38782400-38819000	Strong transcription	Fetal Thymus	thymus
10	chr2:38783800-38827800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr2:38785000-38827600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr2:38786000-38827600	Weak transcription	Colonic Mucosa	Colon
13	chr2:38786400-38818800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr2:38786600-38819000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr2:38792600-38810200	Strong transcription	K562	blood
16	chr2:38795200-38808400	Weak transcription	Left Ventricle	heart
17	chr2:38795200-38808400	Weak transcription	Lung	lung
18	chr2:38795200-38808400	Weak transcription	Ovary	ovary
19	chr2:38795200-38809200	Weak transcription	Fetal Intestine Small	intestine
20	chr2:38795200-38809200	Weak transcription	Fetal Stomach	stomach
21	chr2:38795200-38814800	Weak transcription	Gastric	stomach
22	chr2:38795400-38808200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr2:38795600-38808400	Weak transcription	Brain Cingulate Gyrus	brain
24	chr2:38796200-38808200	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr2:38796400-38808400	Weak transcription	Brain Angular Gyrus	brain
26	chr2:38796400-38812800	Weak transcription	Small Intestine	intestine
27	chr2:38796600-38808600	Weak transcription	Brain Hippocampus Middle	brain
28	chr2:38798000-38808000	Weak transcription	Colon Smooth Muscle	Colon
29	chr2:38798000-38818000	Weak transcription	Stomach Mucosa	stomach
30	chr2:38798000-38827600	Weak transcription	Spleen	Spleen
31	chr2:38798200-38808000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr2:38798200-38808400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr2:38798200-38808400	Weak transcription	Pancreas	Pancrea
34	chr2:38798200-38812800	Weak transcription	Fetal Muscle Leg	muscle
35	chr2:38798200-38812800	Weak transcription	Thymus	Thymus
36	chr2:38798200-38820600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr2:38798200-38821800	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr2:38798200-38827600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr2:38798600-38808000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr2:38798600-38808000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr2:38798600-38808200	Weak transcription	Stomach Smooth Muscle	stomach
42	chr2:38798600-38816400	Weak transcription	Brain Germinal Matrix	brain
43	chr2:38798800-38808200	Weak transcription	Fetal Brain Female	brain
44	chr2:38798800-38817000	Weak transcription	Brain Anterior Caudate	brain
45	chr2:38798800-38822000	Weak transcription	NHEK	skin
46	chr2:38799200-38807400	Weak transcription	Hela-S3	cervix
47	chr2:38799400-38808400	Weak transcription	Rectal Smooth Muscle	rectum
48	chr2:38799600-38808600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr2:38799600-38817200	Weak transcription	Brain Substantia Nigra	brain
50	chr2:38799800-38827800	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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