Variant report

Variant	rs17003337
Chromosome Location	chr4:79466894-79466895
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:79464026..79467254-chr4:79471898..79474362,3	MCF-7	breast:
2	chr4:79465962..79468442-chr4:79470106..79473828,4	MCF-7	breast:
3	chr4:79463825..79467444-chr4:79478158..79482300,4	MCF-7	breast:
4	chr4:79463304..79464850-chr4:79465136..79467888,2	K562	blood:

Variant related genes	Relation type
ENSG00000138772	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs11098227	0.85[ASN][1000 genomes]
rs11098228	1.00[CHB][hapmap];0.83[JPT][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11098229	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11936220	0.80[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11940309	0.87[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13137102	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13142813	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17003342	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34970825	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs36039411	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3749482	0.90[CEU][hapmap];0.90[CHB][hapmap];0.88[JPT][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3749485	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3811747	1.00[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs4563523	0.85[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4975143	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4975144	0.95[CEU][hapmap];0.82[CHB][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs66676781	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67325389	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71611025	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9760192	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009633	chr4:78887573-79652236	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17003337	ANXA3	cis	Esophagus Muscularis	GTEx
rs17003337	ANXA3	cis	Nerve Tibial	GTEx

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:79385000-79467400	Weak transcription	Fetal Brain Male	brain
2	chr4:79393800-79467200	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr4:79401000-79467200	Weak transcription	Psoas Muscle	Psoas
4	chr4:79435600-79467200	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr4:79440600-79467200	Weak transcription	Left Ventricle	heart
6	chr4:79444800-79472400	Weak transcription	Right Atrium	heart
7	chr4:79453400-79467200	Weak transcription	Placenta	Placenta
8	chr4:79456400-79471200	Weak transcription	Fetal Kidney	kidney
9	chr4:79457000-79471200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr4:79458600-79471000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr4:79462200-79467200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr4:79462200-79468800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr4:79462600-79467800	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr4:79463000-79467600	Enhancers	HMEC	breast
15	chr4:79463000-79468000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr4:79463000-79468400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr4:79463000-79472200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr4:79463200-79467600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr4:79463200-79470800	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr4:79463400-79467800	Enhancers	NHDF-Ad	bronchial
21	chr4:79463400-79467800	Enhancers	NHLF	lung
22	chr4:79463400-79468000	Enhancers	Hela-S3	cervix
23	chr4:79463600-79471200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr4:79463600-79472600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr4:79463800-79471800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr4:79464200-79467400	Enhancers	A549	lung
27	chr4:79464200-79467600	Enhancers	Fetal Lung	lung
28	chr4:79464200-79469800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr4:79464600-79467600	Enhancers	Breast Myoepithelial Primary Cells	Breast
30	chr4:79464800-79467200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr4:79464800-79467200	Weak transcription	Pancreas	Pancrea
32	chr4:79464800-79471200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr4:79464800-79472200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr4:79465200-79467200	Weak transcription	HSMMtube	muscle
35	chr4:79465400-79468000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr4:79465600-79467400	Enhancers	Fetal Stomach	stomach
37	chr4:79465800-79467000	Enhancers	HUVEC	blood vessel
38	chr4:79465800-79467400	Weak transcription	Fetal Muscle Trunk	muscle
39	chr4:79465800-79467400	Enhancers	Rectal Smooth Muscle	rectum
40	chr4:79466000-79467600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr4:79466000-79467600	Enhancers	Osteobl	bone
42	chr4:79466200-79467200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr4:79466200-79467200	Weak transcription	Fetal Muscle Leg	muscle
44	chr4:79466200-79467200	Weak transcription	Lung	lung
45	chr4:79466400-79467000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr4:79466400-79467400	Enhancers	Stomach Smooth Muscle	stomach
47	chr4:79466400-79467600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr4:79466600-79467000	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr4:79466600-79467600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr4:79466600-79467600	Enhancers	Muscle Satellite Cultured Cells	--

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