Variant report

Variant	rs1537376
Chromosome Location	chr9:22116220-22116221
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	chr9:22106343..22112134-chr9:22114356..22121456,14	MCF-7	breast:
2	chr9:22115148..22116731-chr9:22237636..22239913,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MTAP-1	chr9:22112761-22118822	NONHSAT130433

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1004638	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10116277	0.83[EUR][1000 genomes]
rs10217426	0.81[AFR][1000 genomes]
rs10217586	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10511701	0.97[EUR][1000 genomes]
rs10733376	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10738606	0.91[EUR][1000 genomes]
rs10738607	0.91[EUR][1000 genomes]
rs10738608	0.89[EUR][1000 genomes]
rs10738609	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10738610	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10757272	0.90[EUR][1000 genomes]
rs10757274	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10757275	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10757277	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10757278	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10757279	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10811654	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10811656	0.86[EUR][1000 genomes]
rs10965234	0.83[AFR][1000 genomes]
rs10965235	0.83[AFR][1000 genomes]
rs1333042	0.95[EUR][1000 genomes]
rs1333043	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1333045	0.85[ASN][1000 genomes]
rs1333046	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1333047	0.90[EUR][1000 genomes]
rs1333048	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1333049	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1412834	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1537370	0.83[EUR][1000 genomes]
rs1537371	0.94[EUR][1000 genomes]
rs1537372	0.94[ASN][1000 genomes]
rs1537373	0.94[EUR][1000 genomes]
rs1537374	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1537375	0.98[EUR][1000 genomes]
rs1556516	0.94[EUR][1000 genomes]
rs1970112	0.82[EUR][1000 genomes]
rs2210538	0.80[EUR][1000 genomes]
rs2383206	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2383207	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2891168	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4977574	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4977575	0.91[EUR][1000 genomes]
rs4977757	0.84[EUR][1000 genomes]
rs6475606	0.83[EUR][1000 genomes]
rs6475609	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7341786	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7341791	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7857118	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7859362	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7859727	0.92[EUR][1000 genomes]
rs944796	0.83[AFR][1000 genomes]
rs944797	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv8426	chr9:21763810-22176200	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv531617	chr9:21985057-22809676	Genic enhancers Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:22097800-22122400	Weak transcription	Dnd41	blood
2	chr9:22104600-22116600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:22105800-22117400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr9:22106600-22117600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr9:22107600-22116800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr9:22107600-22117200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr9:22109000-22117600	Weak transcription	Adipose Nuclei	Adipose
8	chr9:22112400-22116400	Weak transcription	HUVEC	blood vessel
9	chr9:22112400-22116600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr9:22112400-22116600	Weak transcription	HSMM	muscle
11	chr9:22112400-22117400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr9:22112600-22116400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr9:22112600-22117600	Weak transcription	HMEC	breast
14	chr9:22112800-22117800	Active TSS	Rectal Mucosa Donor 29	rectum
15	chr9:22113400-22119800	Weak transcription	Small Intestine	intestine
16	chr9:22113800-22117400	Weak transcription	Stomach Mucosa	stomach
17	chr9:22114200-22116600	Weak transcription	Duodenum Mucosa	Duodenum
18	chr9:22114200-22117200	Weak transcription	Fetal Intestine Large	intestine
19	chr9:22114400-22117400	Active TSS	Rectal Mucosa Donor 31	rectum
20	chr9:22114600-22116600	Weak transcription	Fetal Intestine Small	intestine
21	chr9:22115000-22116600	Weak transcription	Colonic Mucosa	Colon
22	chr9:22115000-22117400	Enhancers	Hela-S3	cervix
23	chr9:22115000-22119600	Enhancers	NHLF	lung
24	chr9:22115200-22117400	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr9:22115200-22117600	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr9:22115400-22116600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr9:22115400-22116600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr9:22115400-22116600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr9:22115400-22116600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr9:22115400-22116600	Weak transcription	Osteobl	bone
31	chr9:22115400-22116800	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr9:22115400-22116800	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr9:22115600-22116600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr9:22115600-22116600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr9:22115600-22116600	Weak transcription	HSMMtube	muscle
36	chr9:22115600-22116600	Weak transcription	NHDF-Ad	bronchial
37	chr9:22115600-22117400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr9:22115600-22117600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr9:22116200-22116600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr9:22116200-22117800	Enhancers	NH-A	brain
41	chr9:22116200-22119600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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