Variant report

Variant	rs4796116
Chromosome Location	chr17:34168500-34168501
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:34157854..34162661-chr17:34163640..34168501,6	K562	blood:

Variant related genes	Relation type
ENSG00000172660	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11650668	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11653282	0.83[ASN][1000 genomes]
rs11868244	0.83[ASN][1000 genomes]
rs2107538	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2280789	0.86[ASN][1000 genomes]
rs2291299	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2306630	0.94[ASN][1000 genomes]
rs28595279	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3760327	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3817655	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4079183	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4239252	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4251703	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4251719	0.86[ASN][1000 genomes]
rs4251724	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4251737	0.87[ASN][1000 genomes]
rs4251749	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4251769	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4251787	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4251791	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4325615	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4795090	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4795093	0.94[ASN][1000 genomes]
rs4795096	0.85[ASN][1000 genomes]
rs4796128	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55950249	0.81[ASN][1000 genomes]
rs6505496	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6505498	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7211393	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7215845	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8066406	0.85[EUR][1000 genomes]
rs8069014	0.95[AFR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8080959	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9303692	0.90[ASN][1000 genomes]
rs9889874	0.89[ASN][1000 genomes]
rs9900563	0.82[ASN][1000 genomes]
rs9908928	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9909416	0.89[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4796116	RDM1	Cis_1M	lymphoblastoid	RTeQTL
rs4796116	RDM1	cis	multi-tissue	Pritchard
rs4796116	TAF15	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34138600-34180800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr17:34138800-34184000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr17:34139200-34184200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr17:34139400-34177600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
5	chr17:34141600-34177400	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr17:34142000-34175800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
7	chr17:34142000-34177600	Strong transcription	HUES48 Cell Line	embryonic stem cell
8	chr17:34142400-34177600	Strong transcription	Fetal Thymus	thymus
9	chr17:34142400-34178200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr17:34142600-34173200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr17:34142600-34175600	Strong transcription	H1 Cell Line	embryonic stem cell
12	chr17:34142600-34177400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
13	chr17:34142600-34180400	Strong transcription	HUES6 Cell Line	embryonic stem cell
14	chr17:34142800-34173200	Strong transcription	Osteobl	bone
15	chr17:34142800-34178600	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr17:34142800-34180800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr17:34142800-34181000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr17:34143000-34174800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr17:34143000-34177400	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr17:34143000-34177400	Strong transcription	Primary B cells from peripheral blood	blood
21	chr17:34143400-34173200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr17:34144000-34175600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr17:34144000-34180000	Strong transcription	HSMM	muscle
24	chr17:34144400-34171000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr17:34144800-34175800	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr17:34144800-34178600	Strong transcription	Adipose Nuclei	Adipose
27	chr17:34145000-34177600	Strong transcription	Dnd41	blood
28	chr17:34145200-34174400	Strong transcription	Liver	Liver
29	chr17:34145200-34174400	Strong transcription	Fetal Intestine Large	intestine
30	chr17:34145200-34177400	Strong transcription	Rectal Mucosa Donor 31	rectum
31	chr17:34145800-34175600	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr17:34145800-34176400	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr17:34145800-34176400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr17:34146000-34176400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr17:34146400-34177600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr17:34146600-34176400	Strong transcription	HUVEC	blood vessel
37	chr17:34147000-34175600	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr17:34147800-34177800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr17:34148200-34178800	Strong transcription	Fetal Muscle Trunk	muscle
40	chr17:34148400-34173000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr17:34149800-34171400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr17:34150000-34170800	Weak transcription	Psoas Muscle	Psoas
43	chr17:34152600-34178800	Weak transcription	Fetal Heart	heart
44	chr17:34154400-34176800	Strong transcription	Fetal Brain Female	brain
45	chr17:34154600-34171200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr17:34156600-34177400	Strong transcription	Primary B cells from cord blood	blood
47	chr17:34157000-34175200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr17:34157200-34169000	Strong transcription	HepG2	liver
49	chr17:34157600-34172400	Strong transcription	Brain Germinal Matrix	brain
50	chr17:34158000-34170600	Weak transcription	Stomach Mucosa	stomach

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