Variant report

Variant	rs11788920
Chromosome Location	chr9:101836786-101836787
allele	A/G
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:28)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:28 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:101768904..101771612-chr9:101836295..101838610,2	K562	blood:
2	chr9:101757461..101761274-chr9:101835859..101838201,6	K562	blood:
3	chr9:101788010..101791486-chr9:101836576..101838981,4	K562	blood:
4	chr9:101719864..101722572-chr9:101836433..101838682,2	K562	blood:
5	chr9:101836496..101838149-chr9:101921084..101922742,2	K562	blood:
6	chr9:101773830..101775494-chr9:101836712..101838293,2	K562	blood:
7	chr9:101675886..101678175-chr9:101835652..101838631,2	K562	blood:
8	chr9:101614852..101617810-chr9:101836306..101838522,2	K562	blood:
9	chr9:101571611..101574366-chr9:101836561..101838250,2	K562	blood:
10	chr9:101828711..101831870-chr9:101834317..101838046,3	MCF-7	breast:
11	chr9:101625807..101630456-chr9:101833733..101838551,4	K562	blood:
12	chr9:101620048..101621808-chr9:101836159..101838047,2	K562	blood:
13	chr9:101835981..101841797-chr9:101884108..101889285,8	K562	blood:
14	chr9:101782750..101786222-chr9:101834554..101837470,3	K562	blood:
15	chr9:101775783..101777327-chr9:101836304..101838650,2	K562	blood:
16	chr9:101598592..101601247-chr9:101835043..101836842,2	K562	blood:
17	chr9:101748657..101752493-chr9:101836719..101838715,3	K562	blood:
18	chr9:101613892..101617810-chr9:101836029..101839366,3	K562	blood:
19	chr9:101782750..101786222-chr9:101835622..101838699,3	K562	blood:
20	chr9:101779201..101781779-chr9:101836297..101838506,2	K562	blood:
21	chr9:101749508..101753145-chr9:101836719..101839131,3	K562	blood:
22	chr9:101793999..101795720-chr9:101833951..101836839,3	K562	blood:
23	chr9:101796455..101798562-chr9:101836494..101838693,2	K562	blood:
24	chr9:101757724..101761274-chr9:101835762..101837823,3	K562	blood:
25	chr9:101746159..101748228-chr9:101836720..101838665,2	K562	blood:
26	chr9:101834831..101839915-chr9:101875600..101879100,5	K562	blood:
27	chr9:101793999..101795600-chr9:101833951..101836839,3	K562	blood:
28	chr9:101835256..101838008-chr9:101914700..101916909,2	K562	blood:

No data

Extended variants
information (count: 34 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1051105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10988700	0.82[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.80[YRI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12683114	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12685226	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13296447	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1413298	0.81[CHB][hapmap];0.93[CHD][hapmap]
rs1537504	0.81[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16918198	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34863444	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35312758	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4742756	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4742758	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4742759	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4742760	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4742761	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4743321	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4743322	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743323	1.00[CEU][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4743324	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4743325	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57992539	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7022000	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7025264	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7031364	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7031588	0.82[MEX][hapmap]
rs7046702	0.82[CEU][hapmap];0.95[MEX][hapmap];0.84[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71494009	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7874183	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs885154	1.00[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs885155	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs914991	1.00[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs914992	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893618	chr9:101800106-101886071	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv893619	chr9:101835165-101936231	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11788920	TSTD2	cis	parietal	SCAN
rs11788920	COL15A1	cis	lymphoblastoid	seeQTL

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101793800-101837600	Weak transcription	Psoas Muscle	Psoas
2	chr9:101816200-101844200	Weak transcription	Gastric	stomach
3	chr9:101822400-101837600	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr9:101822400-101838600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr9:101826600-101848200	Weak transcription	Aorta	Aorta
6	chr9:101828600-101837000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr9:101830000-101837600	Weak transcription	Rectal Smooth Muscle	rectum
8	chr9:101831200-101839000	Weak transcription	Colonic Mucosa	Colon
9	chr9:101831800-101837000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr9:101831800-101837000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr9:101831800-101838400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr9:101832000-101837200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr9:101832200-101837000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr9:101832200-101837600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr9:101832200-101837800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr9:101832200-101839200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr9:101832600-101837200	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr9:101832600-101837600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr9:101832800-101837400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr9:101833400-101837200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr9:101833400-101837200	Weak transcription	NHDF-Ad	bronchial
22	chr9:101833400-101837600	Weak transcription	Primary T cells from cord blood	blood
23	chr9:101833800-101837000	Weak transcription	Fetal Thymus	thymus
24	chr9:101833800-101837400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr9:101834000-101837200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr9:101834000-101837200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr9:101834000-101839000	Weak transcription	Colon Smooth Muscle	Colon
28	chr9:101834200-101837200	Weak transcription	Osteobl	bone
29	chr9:101834200-101837400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr9:101834600-101836800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr9:101834600-101837000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr9:101834600-101837400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr9:101834600-101837400	Weak transcription	Placenta	Placenta
34	chr9:101834600-101837400	Weak transcription	NHLF	lung
35	chr9:101834600-101837600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr9:101834600-101837600	Weak transcription	Right Ventricle	heart
37	chr9:101834800-101837000	Weak transcription	HSMMtube	muscle
38	chr9:101834800-101837600	Weak transcription	Left Ventricle	heart
39	chr9:101834800-101839400	Weak transcription	Stomach Smooth Muscle	stomach
40	chr9:101835000-101837000	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr9:101835000-101837800	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr9:101835200-101837800	Weak transcription	Fetal Muscle Trunk	muscle
43	chr9:101835600-101837000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr9:101835600-101837200	Weak transcription	Fetal Heart	heart
45	chr9:101835600-101837400	Weak transcription	Lung	lung
46	chr9:101835800-101837000	Weak transcription	Fetal Muscle Leg	muscle
47	chr9:101835800-101837200	Weak transcription	NH-A	brain
48	chr9:101835800-101837400	Weak transcription	Right Atrium	heart
49	chr9:101835800-101838800	Weak transcription	Adipose Nuclei	Adipose
50	chr9:101835800-101838800	Weak transcription	Spleen	Spleen

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