Variant report

Variant	rs4656297
Chromosome Location	chr1:161307933-161307934
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11265586	0.89[ASN][1000 genomes]
rs11265587	0.84[ASN][1000 genomes]
rs12745115	0.92[ASN][1000 genomes]
rs12745664	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34589411	0.92[ASN][1000 genomes]
rs3813630	0.84[ASN][1000 genomes]
rs4077630	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4256831	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4282845	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7515068	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7530775	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432986	chr1:161221133-161673682	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1010776	chr1:161282384-161409218	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	esv3417674	chr1:161298229-161310433	Weak transcription Strong transcription Enhancers Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4656297	HSPA7	cis	Muscle Skeletal	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:161285200-161321400	Weak transcription	Stomach Mucosa	stomach
2	chr1:161285400-161310200	Weak transcription	HUVEC	blood vessel
3	chr1:161285400-161321400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr1:161286800-161337400	Weak transcription	Fetal Heart	heart
5	chr1:161287000-161337400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr1:161289600-161317200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr1:161293200-161315200	Strong transcription	HUES48 Cell Line	embryonic stem cell
8	chr1:161293200-161317000	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr1:161293200-161317400	Strong transcription	HUES64 Cell Line	embryonic stem cell
10	chr1:161293400-161315000	Strong transcription	Fetal Intestine Large	intestine
11	chr1:161293800-161308000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr1:161293800-161309600	Strong transcription	Dnd41	blood
13	chr1:161293800-161313400	Strong transcription	Fetal Muscle Leg	muscle
14	chr1:161293800-161313400	Strong transcription	Placenta	Placenta
15	chr1:161293800-161313400	Strong transcription	Rectal Mucosa Donor 29	rectum
16	chr1:161293800-161313600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr1:161293800-161313600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr1:161293800-161317800	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr1:161293800-161317800	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr1:161294000-161317000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr1:161294000-161317200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr1:161294200-161308000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr1:161294200-161318200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
24	chr1:161294200-161337400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr1:161294200-161338200	Weak transcription	Small Intestine	intestine
26	chr1:161294600-161311200	Weak transcription	NHDF-Ad	bronchial
27	chr1:161295000-161317000	Strong transcription	Primary T cells fromperipheralblood	blood
28	chr1:161295000-161317800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr1:161296000-161312600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr1:161297000-161312000	Weak transcription	Pancreas	Pancrea
31	chr1:161299400-161308000	Strong transcription	Primary B cells from cord blood	blood
32	chr1:161300200-161317200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr1:161300400-161317400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr1:161300600-161317200	Strong transcription	HUES6 Cell Line	embryonic stem cell
35	chr1:161301600-161308000	Strong transcription	HepG2	liver
36	chr1:161302000-161314200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr1:161302200-161308000	Strong transcription	Cortex derived primary cultured neurospheres	brain
38	chr1:161304000-161310000	Weak transcription	HSMMtube	muscle
39	chr1:161304200-161309800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr1:161304200-161310400	Weak transcription	Rectal Smooth Muscle	rectum
41	chr1:161304200-161312000	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr1:161304200-161312000	Weak transcription	Brain Angular Gyrus	brain
43	chr1:161304200-161314400	Weak transcription	A549	lung
44	chr1:161304200-161321400	Weak transcription	Gastric	stomach
45	chr1:161304400-161308600	Weak transcription	Brain Anterior Caudate	brain
46	chr1:161304400-161311000	Weak transcription	Brain Hippocampus Middle	brain
47	chr1:161304400-161312000	Weak transcription	Spleen	Spleen
48	chr1:161304600-161308600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr1:161304600-161308800	Weak transcription	GM12878-XiMat	blood
50	chr1:161304600-161310000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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