Variant report

Variant	rs2035888
Chromosome Location	chr10:25234239-25234240
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:25230623..25233059-chr10:25234068..25237014,2	K562	blood:
2	chr10:25228270..25233826-chr10:25234068..25237911,6	K562	blood:
3	chr10:25217701..25221558-chr10:25232453..25235331,3	K562	blood:

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10741071	0.91[CHD][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs10741072	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10764513	0.88[ASN][1000 genomes]
rs10828727	1.00[YRI][hapmap]
rs10828728	0.96[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10828730	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10828731	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11014314	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11014318	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11014320	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs185669	0.95[CHB][hapmap];0.91[CHD][hapmap];0.85[GIH][hapmap];0.83[JPT][hapmap];0.93[ASN][1000 genomes]
rs2478091	0.96[ASN][1000 genomes]
rs274295	0.84[ASN][1000 genomes]
rs274296	0.85[CHD][hapmap];0.84[ASN][1000 genomes]
rs274297	0.85[ASN][1000 genomes]
rs274299	0.96[ASN][1000 genomes]
rs274300	0.80[ASN][1000 genomes]
rs274301	0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs274304	0.83[JPT][hapmap]
rs274305	0.86[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs274307	0.87[ASN][1000 genomes]
rs274310	0.87[ASN][1000 genomes]
rs274311	0.86[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs274313	0.86[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs274316	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs3000491	0.87[ASN][1000 genomes]
rs3748223	0.92[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[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	nsv1053278	chr10:25140776-25269093	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2035888	OTUD1	cis	parietal	SCAN

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25191600-25240600	Weak transcription	Stomach Smooth Muscle	stomach
2	chr10:25210400-25236600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr10:25211400-25239800	Weak transcription	Fetal Kidney	kidney
4	chr10:25215800-25240000	Weak transcription	Fetal Muscle Trunk	muscle
5	chr10:25218800-25236600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr10:25219000-25236600	Weak transcription	Ovary	ovary
7	chr10:25219200-25240000	Weak transcription	Dnd41	blood
8	chr10:25224200-25236400	Weak transcription	Brain Germinal Matrix	brain
9	chr10:25224600-25236000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr10:25225400-25240000	Weak transcription	Duodenum Mucosa	Duodenum
11	chr10:25225400-25240000	Weak transcription	Fetal Brain Female	brain
12	chr10:25226200-25239800	Weak transcription	Fetal Lung	lung
13	chr10:25226400-25239200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr10:25227600-25236600	Weak transcription	Pancreas	Pancrea
15	chr10:25227800-25235400	Weak transcription	Brain Cingulate Gyrus	brain
16	chr10:25227800-25235800	Weak transcription	Brain Angular Gyrus	brain
17	chr10:25228000-25235600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr10:25228200-25239800	Weak transcription	Fetal Stomach	stomach
19	chr10:25229800-25236600	Weak transcription	Fetal Muscle Leg	muscle
20	chr10:25232600-25239800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr10:25232800-25234400	Enhancers	K562	blood
22	chr10:25232800-25240000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr10:25233000-25234400	Enhancers	Fetal Intestine Large	intestine
24	chr10:25233200-25234400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr10:25233200-25234400	Enhancers	A549	lung
26	chr10:25233200-25235000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr10:25233200-25235000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr10:25233400-25234400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr10:25233400-25234400	Enhancers	HepG2	liver
30	chr10:25233400-25234400	Enhancers	HSMM	muscle
31	chr10:25233400-25234400	Enhancers	NHLF	lung
32	chr10:25233400-25234600	Enhancers	Fetal Intestine Small	intestine
33	chr10:25233400-25234600	Enhancers	Stomach Mucosa	stomach
34	chr10:25233600-25234400	Enhancers	HMEC	breast
35	chr10:25233600-25234400	Enhancers	NHDF-Ad	bronchial
36	chr10:25233600-25236200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr10:25233600-25237800	Enhancers	Brain Anterior Caudate	brain
38	chr10:25233800-25234400	Enhancers	Muscle Satellite Cultured Cells	--
39	chr10:25233800-25234400	Enhancers	Brain Inferior Temporal Lobe	brain
40	chr10:25233800-25234400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
41	chr10:25233800-25234400	Enhancers	NH-A	brain
42	chr10:25233800-25234400	Enhancers	NHEK	skin
43	chr10:25233800-25234400	Enhancers	Osteobl	bone
44	chr10:25233800-25236600	Enhancers	Brain Hippocampus Middle	brain
45	chr10:25234000-25235800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr10:25234000-25236200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr10:25234000-25236200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr10:25234200-25234400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr10:25234200-25235400	Weak transcription	Brain Substantia Nigra	brain
50	chr10:25234200-25235800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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