Variant report

Variant	rs7902775
Chromosome Location	chr10:54725776-54725777
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs2384100	0.82[EUR][1000 genomes]
rs7899374	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7902771	0.81[EUR][1000 genomes]
rs7906023	0.83[EUR][1000 genomes]
rs7916982	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532194	chr10:53746620-54735550	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv895404	chr10:54545590-54850707	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv831877	chr10:54565135-54764638	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv467200	chr10:54585401-54726056	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv550905	chr10:54585401-54726056	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1041940	chr10:54621342-54737528	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv1043809	chr10:54645158-54860817	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv540627	chr10:54645158-54860817	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv467201	chr10:54697623-54929003	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv550906	chr10:54697623-54929003	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv470939	chr10:54700783-54917339	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv508584	chr10:54704765-54747382	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7902775	RP11-319F12.2	cis	Thyroid	GTEx

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:54720400-54728000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr10:54723400-54726200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr10:54723600-54726800	Weak transcription	Right Atrium	heart
4	chr10:54724400-54725800	Enhancers	Fetal Intestine Large	intestine
5	chr10:54724800-54725800	Enhancers	H1 Cell Line	embryonic stem cell
6	chr10:54724800-54729000	Enhancers	Fetal Intestine Small	intestine
7	chr10:54725000-54725800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr10:54725000-54726000	Weak transcription	Fetal Kidney	kidney
9	chr10:54725000-54730200	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr10:54725000-54730400	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr10:54725200-54725800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr10:54725200-54725800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr10:54725200-54726000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr10:54725200-54726000	Flanking Active TSS	HepG2	liver
15	chr10:54725200-54727000	Enhancers	Primary B cells from peripheral blood	blood
16	chr10:54725200-54727200	Flanking Active TSS	GM12878-XiMat	blood
17	chr10:54725200-54730200	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr10:54725200-54730200	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr10:54725400-54726200	Enhancers	Primary monocytes fromperipheralblood	blood
20	chr10:54725400-54726600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr10:54725400-54727000	Enhancers	Primary B cells from cord blood	blood
22	chr10:54725400-54729800	Enhancers	HUES6 Cell Line	embryonic stem cell
23	chr10:54725600-54725800	Enhancers	Pancreas	Pancrea
24	chr10:54725600-54726000	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr10:54725600-54726000	Enhancers	Monocytes-CD14+_RO01746	blood
26	chr10:54725600-54727400	Enhancers	H9 Cell Line	embryonic stem cell
27	chr10:54725600-54730400	Enhancers	HUES64 Cell Line	embryonic stem cell

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