Variant report

Variant	rs9881896
Chromosome Location	chr3:133914636-133914637
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr3:133914605-133914701	Spleen_OC	spleen:	n/a	n/a

Variant related genes	Relation type
RYK	TF binding region

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

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

rs_ID	r²[population]
rs10935097	0.81[ASN][1000 genomes]
rs10935104	0.90[ASN][1000 genomes]
rs12635994	0.95[ASN][1000 genomes]
rs13068409	0.89[ASN][1000 genomes]
rs13075720	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13099506	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28514329	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34331927	0.83[EUR][1000 genomes]
rs35015318	0.83[ASN][1000 genomes]
rs35111284	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35432681	0.87[EUR][1000 genomes]
rs35775034	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4077158	0.95[ASN][1000 genomes]
rs4077643	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4280635	0.89[ASN][1000 genomes]
rs4404422	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6439464	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6439469	0.91[ASN][1000 genomes]
rs67022177	0.95[ASN][1000 genomes]
rs6783086	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6783294	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786384	0.87[ASN][1000 genomes]
rs6795164	0.93[ASN][1000 genomes]
rs6796404	0.95[ASN][1000 genomes]
rs6804370	0.91[ASN][1000 genomes]
rs73215351	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7429840	0.91[ASN][1000 genomes]
rs7620941	0.80[ASN][1000 genomes]
rs7623609	0.93[ASN][1000 genomes]
rs7639683	0.93[ASN][1000 genomes]
rs7641162	0.93[ASN][1000 genomes]
rs9809556	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9817270	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9822076	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9822469	0.95[ASN][1000 genomes]
rs9822749	0.98[ASN][1000 genomes]
rs9829505	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9839609	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9846664	0.93[ASN][1000 genomes]
rs9846871	0.84[ASN][1000 genomes]
rs9858000	0.93[ASN][1000 genomes]
rs9859680	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9860060	0.84[ASN][1000 genomes]
rs9860268	0.84[ASN][1000 genomes]
rs9865285	0.81[EUR][1000 genomes]
rs9865773	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9865808	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9877899	0.84[ASN][1000 genomes]
rs9880098	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9881681	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9882128	0.86[EUR][1000 genomes]
rs9882168	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9882590	0.89[ASN][1000 genomes]
rs9882927	0.89[ASN][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	esv3522171	chr3:133889405-134156571	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3522172	chr3:133889405-134156571	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133871800-133919200	Weak transcription	K562	blood
2	chr3:133874400-133929400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:133874600-133933600	Weak transcription	Colonic Mucosa	Colon
4	chr3:133877600-133935200	Weak transcription	Psoas Muscle	Psoas
5	chr3:133877800-133920200	Weak transcription	Brain Substantia Nigra	brain
6	chr3:133877800-133950200	Weak transcription	Small Intestine	intestine
7	chr3:133885600-133919600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr3:133888400-133923600	Weak transcription	Fetal Heart	heart
9	chr3:133893200-133917400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr3:133894800-133917800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr3:133894800-133917800	Weak transcription	Right Ventricle	heart
12	chr3:133894800-133917800	Weak transcription	Thymus	Thymus
13	chr3:133894800-133935200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr3:133894800-133946800	Weak transcription	Pancreas	Pancrea
15	chr3:133895000-133917200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr3:133895000-133917400	Weak transcription	Esophagus	oesophagus
17	chr3:133895000-133917800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr3:133895000-133918000	Weak transcription	Brain Cingulate Gyrus	brain
19	chr3:133895000-133918000	Weak transcription	Spleen	Spleen
20	chr3:133895000-133918600	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr3:133895000-133918800	Weak transcription	Aorta	Aorta
22	chr3:133895000-133950000	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr3:133895000-133950200	Weak transcription	Gastric	stomach
24	chr3:133895200-133919600	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr3:133895200-133927200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr3:133895600-133942800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr3:133895800-133923400	Weak transcription	Lung	lung
28	chr3:133898600-133919400	Weak transcription	A549	lung
29	chr3:133898800-133916600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr3:133898800-133916800	Weak transcription	NHEK	skin
31	chr3:133899000-133918000	Weak transcription	HSMMtube	muscle
32	chr3:133899000-133919200	Weak transcription	NHLF	lung
33	chr3:133899600-133919000	Weak transcription	Brain Germinal Matrix	brain
34	chr3:133899800-133918000	Weak transcription	Fetal Brain Female	brain
35	chr3:133900200-133918800	Weak transcription	Primary hematopoietic stem cells	blood
36	chr3:133900800-133918000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr3:133901000-133918000	Weak transcription	Left Ventricle	heart
38	chr3:133901400-133915400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr3:133902000-133919600	Weak transcription	Fetal Brain Male	brain
40	chr3:133902000-133930400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:133902600-133918200	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr3:133902800-133919600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr3:133903000-133918000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr3:133903000-133929000	Weak transcription	GM12878-XiMat	blood
45	chr3:133903600-133919000	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr3:133905200-133916000	Strong transcription	Adipose Nuclei	Adipose
47	chr3:133905600-133915400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr3:133907000-133916000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr3:133907400-133918600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr3:133907800-133918000	Weak transcription	Brain Anterior Caudate	brain

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