Variant report

Variant	rs1417257
Chromosome Location	chr10:93649880-93649881
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:93643244..93645164-chr10:93648326..93650268,2	MCF-7	breast:
2	chr10:93648930..93651665-chr10:93666944..93669498,2	MCF-7	breast:
3	chr10:93645639..93650363-chr10:93664527..93668609,7	MCF-7	breast:
4	chr10:93649585..93651720-chr10:93654975..93657870,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000272817	Chromatin interaction
ENSG00000174721	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10736066	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1538832	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17347260	1.00[ASN][1000 genomes]
rs17433251	1.00[ASN][1000 genomes]
rs1772181	1.00[ASN][1000 genomes]
rs1772186	1.00[ASN][1000 genomes]
rs1772188	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2258946	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2421705	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2421706	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61743258	0.81[ASN][1000 genomes]
rs61874701	1.00[ASN][1000 genomes]
rs61874749	0.81[ASN][1000 genomes]
rs61876142	0.81[ASN][1000 genomes]
rs61876148	0.81[ASN][1000 genomes]
rs61876151	0.81[ASN][1000 genomes]
rs6583790	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6583792	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7089495	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7093658	0.90[ASN][1000 genomes]
rs72823110	0.81[ASN][1000 genomes]
rs72823162	1.00[ASN][1000 genomes]
rs7912830	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7917198	0.81[ASN][1000 genomes]
rs7917450	0.81[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	nsv7491	chr10:93626192-93671694	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv1842657	chr10:93634155-93668663	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription	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
rs1417257	TNKS2-AS1	cis	Thyroid	GTEx

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93647400-93667800	Weak transcription	Spleen	Spleen
2	chr10:93647600-93651600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr10:93647800-93650000	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr10:93647800-93650200	Weak transcription	Pancreas	Pancrea
5	chr10:93647800-93651000	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr10:93648000-93650400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr10:93648000-93650400	Weak transcription	HepG2	liver
8	chr10:93648000-93650400	Weak transcription	NHDF-Ad	bronchial
9	chr10:93648000-93650600	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr10:93648000-93650600	Weak transcription	A549	lung
11	chr10:93648000-93650600	Weak transcription	HUVEC	blood vessel
12	chr10:93648000-93650600	Weak transcription	NHLF	lung
13	chr10:93648000-93651400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr10:93648000-93651400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr10:93648000-93651400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr10:93648400-93650400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr10:93648400-93650400	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr10:93648600-93650400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr10:93649200-93650800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr10:93649400-93650200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr10:93649400-93650800	Enhancers	H9 Cell Line	embryonic stem cell
22	chr10:93649600-93650400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr10:93649600-93650800	Enhancers	H1 Cell Line	embryonic stem cell
24	chr10:93649800-93650200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr10:93649800-93650600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr10:93649800-93650600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr10:93649800-93650600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr10:93649800-93651000	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr10:93649800-93652200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
30	chr10:93649800-93656200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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