Variant report

Variant	rs6699777
Chromosome Location	chr1:168772240-168772241
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:168771076..168773602-chr1:168775247..168778222,3	MCF-7	breast:
2	chr1:168765218..168767116-chr1:168771235..168774023,2	K562	blood:
3	chr1:168766068..168768003-chr1:168771621..168774193,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1008483	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10918994	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11582358	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11583049	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12059023	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12067471	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12564363	0.82[ASN][1000 genomes]
rs12567397	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12569208	0.84[ASN][1000 genomes]
rs17570453	0.83[CEU][hapmap];0.82[JPT][hapmap]
rs2066895	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3738241	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3738242	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56032568	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59454169	0.82[ASN][1000 genomes]
rs6686124	0.82[ASN][1000 genomes]
rs72703566	0.82[ASN][1000 genomes]
rs7544863	1.00[CEU][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs926432	1.00[CEU][hapmap];0.91[JPT][hapmap];0.94[EUR][1000 genomes];0.88[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	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
2	nsv831847	chr1:168669877-168850129	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6699777	GPR161	cis	brain	BrainEAC

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168755600-168772800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:168769000-168773800	Enhancers	Fetal Intestine Large	intestine
3	chr1:168769200-168772600	Enhancers	HepG2	liver
4	chr1:168769200-168774600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr1:168769400-168773000	Enhancers	Hela-S3	cervix
6	chr1:168770000-168772400	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr1:168770000-168773400	Weak transcription	A549	lung
8	chr1:168770400-168772400	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr1:168770400-168772600	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr1:168770400-168773200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr1:168770400-168773200	Weak transcription	Gastric	stomach
12	chr1:168770600-168772800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr1:168770600-168773400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr1:168771000-168773200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr1:168771000-168773600	Enhancers	Stomach Mucosa	stomach
16	chr1:168771200-168773400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr1:168771200-168774200	Enhancers	Fetal Intestine Small	intestine
18	chr1:168771400-168773000	Enhancers	Small Intestine	intestine
19	chr1:168771600-168773000	Weak transcription	Duodenum Mucosa	Duodenum
20	chr1:168771800-168774200	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr1:168772000-168772400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr1:168772200-168772400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr1:168772200-168772400	Enhancers	Pancreas	Pancrea
24	chr1:168772200-168772600	Enhancers	H1 Cell Line	embryonic stem cell
25	chr1:168772200-168773200	Weak transcription	HUES48 Cell Line	embryonic stem cell

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