Variant report

Variant	rs10984377
Chromosome Location	chr9:100684534-100684535
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:35)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:35 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:52710261..52711062-chr9:100684451..100685047,2	Hela-S3	cervix:
2	chr9:100682029..100688801-chr9:100740969..100749393,29	MCF-7	breast:
3	chr9:100682922..100687440-chr9:100817123..100820939,8	MCF-7	breast:
4	chr2:73612640..73613510-chr9:100684147..100685046,2	Hela-S3	cervix:
5	chr9:100684436..100684977-chrX:40440205..40441030,2	Hela-S3	cervix:
6	chr19:5690248..5690846-chr9:100684329..100685317,2	Hela-S3	cervix:
7	chr9:100683922..100686421-chr9:100749688..100751954,2	MCF-7	breast:
8	chr9:100393929..100396893-chr9:100683273..100687162,3	K562	blood:
9	chr9:100458137..100459680-chr9:100684005..100686050,2	MCF-7	breast:
10	chr9:100683337..100688322-chr9:101015638..101019207,5	MCF-7	breast:
11	chr9:100683217..100685598-chr9:100817702..100819594,2	MCF-7	breast:
12	chr9:100678422..100708679-chr9:100734559..100755577,174	K562	blood:
13	chr9:100683356..100686345-chr9:100832359..100837233,6	MCF-7	breast:
14	chr9:100683172..100685162-chr9:100749919..100752438,2	MCF-7	breast:
15	chr9:100683079..100687048-chr9:101015405..101020638,4	K562	blood:
16	chr9:100466474..100468807-chr9:100682892..100684747,2	MCF-7	breast:
17	chr9:100683358..100685652-chr9:101557664..101560368,2	K562	blood:
18	chr9:100682507..100691249-chr9:100739828..100748095,35	MCF-7	breast:
19	chr2:162016997..162017961-chr9:100684374..100684996,2	Hela-S3	cervix:
20	chr17:7387588..7388177-chr9:100684359..100685331,2	Hela-S3	cervix:
21	chr1:145507315..145508085-chr9:100684014..100684726,2	Hela-S3	cervix:
22	chr1:43637450..43638367-chr9:100684269..100684815,2	Hela-S3	cervix:
23	chr2:38977694..38978560-chr9:100684515..100685296,2	HCT-116	colon:
24	chr9:100684278..100686693-chr9:100816052..100820620,8	K562	blood:
25	chr7:138145133..138145677-chr9:100684432..100685419,2	Hela-S3	cervix:
26	chr20:48599018..48599575-chr9:100684497..100685019,2	Hela-S3	cervix:
27	chr10:35484287..35485259-chr9:100684125..100684996,2	Hela-S3	cervix:
28	chr2:204400007..204400680-chr9:100684347..100685133,2	Hela-S3	cervix:
29	chr9:100679913..100686278-chr9:100816188..100820459,11	K562	blood:
30	chr17:52978107..52978650-chr9:100684226..100685178,2	Hela-S3	cervix:
31	chr9:19048684..19049542-chr9:100684339..100685327,2	Hela-S3	cervix:
32	chr6:31703444..31704424-chr9:100684339..100685051,2	Hela-S3	cervix:
33	chr9:100675954..100709047-chr9:100737887..100755543,175	K562	blood:
34	chr16:10674320..10675054-chr9:100684357..100685157,2	Hela-S3	cervix:
35	chr9:100683227..100687367-chr9:100758311..100762778,5	K562	blood:

No data

Variant related genes	Relation type
ENSG00000109184	Chromatin interaction
ENSG00000236896	Chromatin interaction
ENSG00000136937	Chromatin interaction
ENSG00000131795	Chromatin interaction
ENSG00000141198	Chromatin interaction
ENSG00000115875	Chromatin interaction
ENSG00000243710	Chromatin interaction
ENSG00000213853	Chromatin interaction
ENSG00000213719	Chromatin interaction
ENSG00000234222	Chromatin interaction
ENSG00000173166	Chromatin interaction
ENSG00000130255	Chromatin interaction
ENSG00000155876	Chromatin interaction
ENSG00000124216	Chromatin interaction
ENSG00000182220	Chromatin interaction
ENSG00000136936	Chromatin interaction
ENSG00000095794	Chromatin interaction
ENSG00000116127	Chromatin interaction
ENSG00000181222	Chromatin interaction
ENSG00000136938	Chromatin interaction
ENSG00000122779	Chromatin interaction
ENSG00000095383	Chromatin interaction
ENSG00000165138	Chromatin interaction
ENSG00000136560	Chromatin interaction
ENSG00000136925	Chromatin interaction
ENSG00000117395	Chromatin interaction
ENSG00000095380	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10115216	1.00[YRI][hapmap]
rs10512255	1.00[YRI][hapmap]
rs10512256	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1059003	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739526	1.00[YRI][hapmap]
rs10760011	1.00[YRI][hapmap]
rs10983892	0.82[EUR][1000 genomes]
rs10983893	0.82[EUR][1000 genomes]
rs10983896	0.82[EUR][1000 genomes]
rs10984009	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs10984098	0.93[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10984253	1.00[YRI][hapmap]
rs10984516	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984522	0.92[CEU][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984532	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984545	0.86[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12004762	1.00[YRI][hapmap]
rs12006522	1.00[YRI][hapmap]
rs12156487	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12375612	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12376113	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13295123	0.82[EUR][1000 genomes]
rs1348387	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1561957	1.00[YRI][hapmap]
rs17687621	1.00[CEU][hapmap];1.00[YRI][hapmap];0.90[EUR][1000 genomes]
rs1947015	0.91[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2120262	1.00[YRI][hapmap]
rs3808893	1.00[YRI][hapmap]
rs3824495	1.00[YRI][hapmap]
rs4514106	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4742708	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743143	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4743144	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4743149	0.93[CEU][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs55978521	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7027221	1.00[YRI][hapmap]
rs7031386	1.00[YRI][hapmap]
rs7032302	0.82[EUR][1000 genomes]
rs7034336	1.00[YRI][hapmap]
rs7036589	1.00[YRI][hapmap]
rs7037172	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7038998	1.00[YRI][hapmap]
rs7043516	0.93[CEU][hapmap]
rs7048255	1.00[YRI][hapmap]
rs72753506	0.82[EUR][1000 genomes]
rs72753508	0.82[EUR][1000 genomes]
rs72753537	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72753557	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753579	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753581	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753588	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7851498	0.88[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7854948	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9299258	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893611	chr9:100561055-100739888	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv1048135	chr9:100666931-100717030	Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
3	nsv525113	chr9:100669799-100686815	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv524282	chr9:100677166-100684757	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100683000-100684600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
2	chr9:100683000-100685400	Active TSS	K562	blood
3	chr9:100683000-100685600	Active TSS	Rectal Mucosa Donor 29	rectum
4	chr9:100683400-100685400	Active TSS	Primary T cells from cord blood	blood
5	chr9:100683400-100685400	Active TSS	Duodenum Mucosa	Duodenum
6	chr9:100683400-100685400	Active TSS	GM12878-XiMat	blood
7	chr9:100683400-100685600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr9:100683600-100685200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr9:100683600-100685400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr9:100683600-100685400	Active TSS	Primary T helper naive cells fromperipheralblood	blood
11	chr9:100683600-100685400	Active TSS	Primary T helper cells PMA-I stimulated	--
12	chr9:100683600-100686400	Active TSS	Thymus	Thymus
13	chr9:100683800-100685000	Active TSS	Hela-S3	cervix
14	chr9:100683800-100685400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
15	chr9:100683800-100685400	Active TSS	HSMM	muscle
16	chr9:100683800-100685800	Active TSS	Breast Myoepithelial Primary Cells	Breast
17	chr9:100683800-100686200	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr9:100683800-100686200	Active TSS	Fetal Brain Female	brain
19	chr9:100683800-100686200	Active TSS	Rectal Smooth Muscle	rectum
20	chr9:100684000-100685000	Active TSS	HSMMtube	muscle
21	chr9:100684000-100685200	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
22	chr9:100684000-100685400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr9:100684000-100685400	Active TSS	HUES48 Cell Line	embryonic stem cell
24	chr9:100684000-100685400	Active TSS	HUES64 Cell Line	embryonic stem cell
25	chr9:100684000-100685400	Active TSS	iPS-15b Cell Line	embryonic stem cell
26	chr9:100684000-100685400	Active TSS	Brain Cingulate Gyrus	brain
27	chr9:100684000-100685400	Active TSS	Brain Hippocampus Middle	brain
28	chr9:100684000-100685400	Active TSS	Duodenum Smooth Muscle	Duodenum
29	chr9:100684000-100685400	Active TSS	Fetal Intestine Small	intestine
30	chr9:100684000-100685400	Active TSS	Fetal Kidney	kidney
31	chr9:100684000-100685400	Active TSS	Fetal Stomach	stomach
32	chr9:100684000-100685400	Active TSS	Psoas Muscle	Psoas
33	chr9:100684000-100685400	Active TSS	Skeletal Muscle Female	skeletal muscle
34	chr9:100684000-100685400	Active TSS	A549	lung
35	chr9:100684000-100685400	Active TSS	HMEC	breast
36	chr9:100684000-100685400	Active TSS	NH-A	brain
37	chr9:100684000-100685400	Active TSS	NHDF-Ad	bronchial
38	chr9:100684000-100685600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr9:100684000-100685600	Active TSS	Colon Smooth Muscle	Colon
40	chr9:100684000-100685800	Active TSS	iPS-20b Cell Line	embryonic stem cell
41	chr9:100684000-100686000	Active TSS	ES-I3 Cell Line	embryonic stem cell
42	chr9:100684000-100686000	Active TSS	HUES6 Cell Line	embryonic stem cell
43	chr9:100684000-100686000	Active TSS	Aorta	Aorta
44	chr9:100684000-100686000	Active TSS	Colonic Mucosa	Colon
45	chr9:100684000-100686000	Flanking Active TSS	Placenta	Placenta
46	chr9:100684000-100686200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr9:100684000-100686200	Active TSS	Brain Substantia Nigra	brain
48	chr9:100684000-100686200	Active TSS	Fetal Intestine Large	intestine
49	chr9:100684000-100686200	Active TSS	Right Atrium	heart
50	chr9:100684000-100686200	Active TSS	Right Ventricle	heart

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