Variant report

Variant	rs35446411
Chromosome Location	chr3:49350033-49350034
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11707940	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11709788	0.90[ASN][1000 genomes]
rs11920251	0.90[ASN][1000 genomes]
rs12497569	0.88[ASN][1000 genomes]
rs12715435	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13077723	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13078949	0.86[ASN][1000 genomes]
rs1865741	0.88[ASN][1000 genomes]
rs2230929	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2304442	0.90[EUR][1000 genomes]
rs34142492	0.86[ASN][1000 genomes]
rs34366700	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34514189	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34567776	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34915642	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35869135	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4410472	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4554002	0.86[ASN][1000 genomes]
rs4955431	0.88[ASN][1000 genomes]
rs56038006	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs67882627	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6795772	0.88[ASN][1000 genomes]
rs73086105	0.95[ASN][1000 genomes]
rs7640903	0.86[ASN][1000 genomes]
rs9818758	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9863142	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9864406	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9873994	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9874474	0.91[EUR][1000 genomes]
rs9883409	0.91[EUR][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	nsv1008750	chr3:49208815-49362401	Weak transcription Genic enhancers Strong transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs35446411	RBM6	Cis_1M	lymphoblastoid	RTeQTL
rs35446411	WDR6	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49312600-49375800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr3:49314800-49355400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:49314800-49364800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:49315200-49352600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr3:49315200-49373600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr3:49315200-49375000	Strong transcription	Fetal Stomach	stomach
7	chr3:49315400-49370400	Strong transcription	Fetal Thymus	thymus
8	chr3:49316200-49370200	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr3:49317200-49371800	Strong transcription	Fetal Intestine Small	intestine
10	chr3:49317400-49369400	Strong transcription	Primary neutrophils fromperipheralblood	blood
11	chr3:49317400-49370600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
12	chr3:49319200-49374800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr3:49319600-49371800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr3:49320200-49375000	Strong transcription	Thymus	Thymus
15	chr3:49320600-49351400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr3:49320800-49368000	Strong transcription	Primary T cells from cord blood	blood
17	chr3:49321800-49373600	Strong transcription	Primary B cells from peripheral blood	blood
18	chr3:49326800-49373400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr3:49326800-49375000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr3:49332400-49351400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr3:49332600-49354400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr3:49333600-49369600	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr3:49335000-49351000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:49335000-49365200	Strong transcription	Spleen	Spleen
25	chr3:49335000-49369400	Strong transcription	Monocytes-CD14+_RO01746	blood
26	chr3:49335000-49375000	Strong transcription	Placenta	Placenta
27	chr3:49335200-49351200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:49335200-49351400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr3:49335200-49365200	Strong transcription	Lung	lung
30	chr3:49335200-49369800	Strong transcription	Primary monocytes fromperipheralblood	blood
31	chr3:49335200-49375200	Strong transcription	Fetal Muscle Trunk	muscle
32	chr3:49335400-49365200	Strong transcription	Fetal Muscle Leg	muscle
33	chr3:49335800-49351600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr3:49336200-49351000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr3:49336200-49354200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr3:49336200-49365600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr3:49336400-49351600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr3:49338200-49361600	Weak transcription	Stomach Mucosa	stomach
39	chr3:49338200-49375000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr3:49338600-49351600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:49343400-49351600	Weak transcription	HMEC	breast
42	chr3:49343600-49351600	Weak transcription	K562	blood
43	chr3:49344200-49351600	Weak transcription	NHDF-Ad	bronchial
44	chr3:49348200-49358200	Weak transcription	Psoas Muscle	Psoas
45	chr3:49348400-49351000	Weak transcription	NH-A	brain
46	chr3:49348400-49361200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr3:49348600-49352600	Weak transcription	Small Intestine	intestine
48	chr3:49348600-49354200	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr3:49348600-49361800	Weak transcription	Fetal Brain Male	brain
50	chr3:49348800-49351400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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