Variant report

Variant	rs1874119
Chromosome Location	chr1:220879272-220879273
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	chr1:220799540..220802603-chr1:220876987..220879444,3	K562	blood:
2	chr1:220862639..220865186-chr1:220879178..220882320,3	K562	blood:

Variant related genes	Relation type
ENSG00000162817	Chromatin interaction
ENSG00000233012	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs17007981	0.82[JPT][hapmap]
rs17008285	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17008287	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17008290	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17008302	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17008319	0.88[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17008341	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1874120	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3737297	0.85[JPT][hapmap]
rs6663028	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6675112	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6675203	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6677780	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6678186	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6685109	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6686013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7533858	1.00[JPT][hapmap]

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	nsv468194	chr1:220845610-220885612	Bivalent Enhancer Strong transcription Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv549227	chr1:220845610-220885612	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	esv2754270	chr1:220850116-220929155	Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1874119	C1orf115	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:220866600-220879600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr1:220873600-220879400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr1:220873800-220880000	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr1:220876600-220881600	Weak transcription	Liver	Liver
5	chr1:220876800-220879400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr1:220876800-220879600	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr1:220877200-220879400	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr1:220877200-220879800	Weak transcription	Small Intestine	intestine
9	chr1:220877400-220879400	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr1:220877400-220880200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr1:220878200-220880000	Enhancers	Fetal Heart	heart
12	chr1:220878200-220880000	Enhancers	Left Ventricle	heart
13	chr1:220878200-220883800	Enhancers	Fetal Intestine Small	intestine
14	chr1:220878400-220879600	Enhancers	Spleen	Spleen
15	chr1:220878400-220880400	Enhancers	Gastric	stomach
16	chr1:220878400-220885200	Enhancers	Duodenum Mucosa	Duodenum
17	chr1:220878400-220886000	Enhancers	HepG2	liver
18	chr1:220878600-220879400	Enhancers	Stomach Mucosa	stomach
19	chr1:220878600-220880000	Enhancers	Right Atrium	heart
20	chr1:220878800-220879400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr1:220878800-220880000	Enhancers	Right Ventricle	heart
22	chr1:220878800-220880200	Enhancers	Fetal Intestine Large	intestine
23	chr1:220878800-220885200	Enhancers	Pancreas	Pancrea
24	chr1:220879200-220879600	Enhancers	Adipose Nuclei	Adipose
25	chr1:220879200-220880200	Enhancers	Placenta	Placenta
26	chr1:220879200-220880600	Enhancers	Ovary	ovary

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