Variant report

Variant	rs7851787
Chromosome Location	chr9:101785633-101785634
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101782641..101786481-chr9:101865510..101868655,3	MCF-7	breast:
2	chr9:101782750..101786222-chr9:101835622..101838699,3	K562	blood:
3	chr9:101782750..101786222-chr9:101834554..101837470,3	K562	blood:
4	chr9:101783791..101786672-chr9:101794290..101796962,2	K562	blood:
5	chr9:101767464..101769714-chr9:101783800..101785964,2	MCF-7	breast:
6	chr9:101779716..101783952-chr9:101784927..101791325,8	K562	blood:
7	chr9:101780306..101785966-chr9:101786034..101790764,8	K562	blood:

Variant related genes	Relation type
ENSG00000106799	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10988510	0.82[JPT][hapmap]
rs10988521	0.87[JPT][hapmap]
rs10988530	0.86[CEU][hapmap];0.91[JPT][hapmap];0.98[EUR][1000 genomes]
rs11515534	0.98[EUR][1000 genomes]
rs11515536	0.97[EUR][1000 genomes]
rs12377855	0.93[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes]
rs12378396	0.93[CEU][hapmap];0.91[JPT][hapmap];0.98[EUR][1000 genomes]
rs12379014	1.00[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.98[EUR][1000 genomes]
rs12380469	0.93[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.98[EUR][1000 genomes]
rs3739799	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61462449	0.98[EUR][1000 genomes]
rs7022881	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs7028686	0.93[CEU][hapmap]
rs7032060	1.00[JPT][hapmap]
rs7034847	1.00[CEU][hapmap];0.81[CHB][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.98[EUR][1000 genomes]
rs7043134	0.83[JPT][hapmap]
rs73503730	0.89[EUR][1000 genomes]
rs7848837	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7861925	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];0.97[EUR][1000 genomes];0.92[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	nsv528933	chr9:101784777-101788522	Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7851787	STX17	cis	lymphoblastoid	seeQTL
rs7851787	C9orf3	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101761600-101814400	Weak transcription	Gastric	stomach
2	chr9:101768800-101787200	Weak transcription	Right Atrium	heart
3	chr9:101769000-101790400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr9:101773000-101793600	Weak transcription	Aorta	Aorta
5	chr9:101776600-101790200	Weak transcription	Fetal Intestine Small	intestine
6	chr9:101777000-101788000	Weak transcription	Esophagus	oesophagus
7	chr9:101777400-101785800	Strong transcription	Fetal Stomach	stomach
8	chr9:101777800-101786000	Strong transcription	Colon Smooth Muscle	Colon
9	chr9:101779400-101788600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr9:101781200-101786000	Genic enhancers	Placenta	Placenta
11	chr9:101781200-101791800	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr9:101782000-101788400	Weak transcription	K562	blood
13	chr9:101782000-101819800	Weak transcription	Colonic Mucosa	Colon
14	chr9:101783000-101786000	Weak transcription	Brain Anterior Caudate	brain
15	chr9:101783200-101786000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr9:101783200-101786000	Weak transcription	HSMM	muscle
17	chr9:101783400-101786000	Weak transcription	Osteobl	bone
18	chr9:101784000-101786000	Weak transcription	NHDF-Ad	bronchial
19	chr9:101784400-101786400	Genic enhancers	Stomach Smooth Muscle	stomach
20	chr9:101784600-101785800	Weak transcription	HSMMtube	muscle
21	chr9:101784600-101786600	Genic enhancers	Fetal Muscle Leg	muscle
22	chr9:101784800-101785800	Weak transcription	Hela-S3	cervix
23	chr9:101784800-101786400	Enhancers	Primary T cells fromperipheralblood	blood
24	chr9:101784800-101786400	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
25	chr9:101784800-101786600	Genic enhancers	Fetal Muscle Trunk	muscle
26	chr9:101785000-101786400	Enhancers	Placenta Amnion	Placenta Amnion
27	chr9:101785000-101788000	Weak transcription	Pancreas	Pancrea
28	chr9:101785000-101788200	Weak transcription	Right Ventricle	heart
29	chr9:101785200-101786000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr9:101785200-101786400	Strong transcription	Duodenum Smooth Muscle	Duodenum
31	chr9:101785200-101786400	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr9:101785200-101786600	Genic enhancers	Adipose Nuclei	Adipose
33	chr9:101785200-101788000	Weak transcription	Left Ventricle	heart
34	chr9:101785400-101786400	Enhancers	Skeletal Muscle Male	skeletal muscle
35	chr9:101785600-101785800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr9:101785600-101786000	Enhancers	Thymus	Thymus
37	chr9:101785600-101786600	Enhancers	Ovary	ovary
38	chr9:101785600-101786600	Enhancers	NHLF	lung
39	chr9:101785600-101787400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr9:101785600-101788000	Weak transcription	Rectal Smooth Muscle	rectum
41	chr9:101785600-101789000	Weak transcription	Fetal Thymus	thymus

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