Variant report

Variant	rs1417254
Chromosome Location	chr10:93606312-93606313
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:93605549..93608415-chr10:93668334..93671108,2	K562	blood:

Variant related genes	Relation type
ENSG00000174721	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10509636	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10786012	0.81[EUR][1000 genomes]
rs10786019	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10881960	0.84[EUR][1000 genomes]
rs10881969	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10881971	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10881975	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10881980	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10881981	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10881985	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10881989	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11186668	0.84[EUR][1000 genomes]
rs11186697	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12220444	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12221087	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12412538	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12413090	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12413256	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12782935	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1341263	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1539040	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2066275	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2297960	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2901505	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3758499	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4390259	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4603212	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs61874730	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61874731	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7082350	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7087365	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7903827	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7906805	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7912927	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7913826	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7913999	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7917710	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7919141	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7921354	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs1417254	TNKS2	cis	Nerve Tibial	GTEx
rs1417254	TNKS2	cis	Adipose Subcutaneous	GTEx
rs1417254	TNKS2	cis	Esophagus Muscularis	GTEx
rs1417254	TNKS2-AS1	cis	Heart Left Ventricle	GTEx
rs1417254	TNKS2	cis	Esophagus Mucosa	GTEx
rs1417254	TNKS2	cis	Thyroid	GTEx
rs1417254	TNKS2	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	chr10:93567200-93624200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr10:93569200-93626800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:93570000-93608000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr10:93570800-93625000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr10:93570800-93626000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr10:93570800-93626000	Strong transcription	Dnd41	blood
7	chr10:93571000-93623200	Strong transcription	HUES6 Cell Line	embryonic stem cell
8	chr10:93571000-93624000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
9	chr10:93571000-93625800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr10:93571200-93626400	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr10:93571400-93626400	Strong transcription	Liver	Liver
12	chr10:93571400-93626400	Strong transcription	Fetal Thymus	thymus
13	chr10:93572000-93626200	Strong transcription	Rectal Mucosa Donor 31	rectum
14	chr10:93572000-93626400	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr10:93572000-93626400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr10:93572200-93623600	Strong transcription	HUES48 Cell Line	embryonic stem cell
17	chr10:93572200-93625600	Strong transcription	Placenta	Placenta
18	chr10:93572200-93626400	Strong transcription	Primary B cells from cord blood	blood
19	chr10:93572400-93623000	Strong transcription	H1 Cell Line	embryonic stem cell
20	chr10:93572400-93624400	Strong transcription	Rectal Mucosa Donor 29	rectum
21	chr10:93572400-93624800	Strong transcription	Primary T cells fromperipheralblood	blood
22	chr10:93572400-93626000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr10:93572400-93626000	Strong transcription	Primary B cells from peripheral blood	blood
24	chr10:93572400-93626000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr10:93572400-93626200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr10:93572400-93626200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr10:93572600-93611800	Strong transcription	Osteobl	bone
28	chr10:93572600-93613200	Strong transcription	NH-A	brain
29	chr10:93572600-93624400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr10:93572600-93626200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
31	chr10:93572600-93626200	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr10:93572600-93626200	Strong transcription	Adipose Nuclei	Adipose
33	chr10:93572600-93626600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr10:93572600-93629000	Weak transcription	Stomach Mucosa	stomach
35	chr10:93572800-93626200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr10:93573000-93626200	Strong transcription	Duodenum Smooth Muscle	Duodenum
37	chr10:93573400-93624400	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr10:93574000-93606400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr10:93576000-93606800	Strong transcription	HSMM	muscle
40	chr10:93576200-93606600	Strong transcription	Primary T cells from cord blood	blood
41	chr10:93576600-93624400	Strong transcription	Duodenum Mucosa	Duodenum
42	chr10:93577000-93624800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr10:93577400-93613600	Strong transcription	Stomach Smooth Muscle	stomach
44	chr10:93578600-93608000	Weak transcription	Aorta	Aorta
45	chr10:93579600-93617200	Strong transcription	Fetal Lung	lung
46	chr10:93580000-93624600	Strong transcription	HUES64 Cell Line	embryonic stem cell
47	chr10:93583200-93606400	Strong transcription	Brain Anterior Caudate	brain
48	chr10:93583200-93611800	Strong transcription	Primary hematopoietic stem cells	blood
49	chr10:93584200-93626400	Strong transcription	Skeletal Muscle Female	skeletal muscle
50	chr10:93585400-93626200	Strong transcription	Skeletal Muscle Male	skeletal muscle

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