Variant report

Variant	rs9606806
Chromosome Location	chr22:31433846-31433847
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr22:31432694..31434751-chr22:31475361..31478726,3	MCF-7	breast:
2	chr22:31432776..31435079-chr22:31450665..31453170,2	MCF-7	breast:
3	chr22:31431928..31434471-chr22:31449804..31451831,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183963	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12152151	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55646570	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7284438	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8142236	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9606799	0.84[ASN][1000 genomes]
rs9609189	0.84[ASN][1000 genomes]
rs9609192	0.84[ASN][1000 genomes]
rs9609197	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9609199	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[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	nsv9896	chr22:31369204-31513933	Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
2	nsv966103	chr22:31410201-31452981	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9606806	TUG1	Cis_1M	lymphoblastoid	RTeQTL
rs9606806	MORC2-AS1	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:31430000-31434200	Weak transcription	HepG2	liver
2	chr22:31431600-31434600	Enhancers	Fetal Muscle Trunk	muscle
3	chr22:31431800-31436000	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr22:31431800-31437200	Enhancers	Fetal Stomach	stomach
5	chr22:31432600-31436800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr22:31432800-31434400	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr22:31433000-31434200	Weak transcription	Brain Angular Gyrus	brain
8	chr22:31433000-31440200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr22:31433000-31440200	Weak transcription	Right Atrium	heart
10	chr22:31433200-31435200	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr22:31433200-31436600	Enhancers	Fetal Muscle Leg	muscle
12	chr22:31433400-31434000	Enhancers	Osteobl	bone
13	chr22:31433400-31434400	Weak transcription	A549	lung
14	chr22:31433400-31435200	Weak transcription	Brain Hippocampus Middle	brain
15	chr22:31433400-31435800	Enhancers	Duodenum Smooth Muscle	Duodenum
16	chr22:31433400-31436000	Enhancers	Adipose Nuclei	Adipose
17	chr22:31433400-31436200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr22:31433400-31440200	Weak transcription	Lung	lung
19	chr22:31433600-31434000	Enhancers	Fetal Lung	lung
20	chr22:31433600-31434600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr22:31433600-31434800	Weak transcription	Fetal Intestine Small	intestine
22	chr22:31433600-31434800	Weak transcription	HSMMtube	muscle
23	chr22:31433600-31434800	Enhancers	NHDF-Ad	bronchial
24	chr22:31433600-31434800	Weak transcription	NHLF	lung
25	chr22:31433600-31435000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr22:31433600-31435000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr22:31433600-31435000	Weak transcription	Fetal Kidney	kidney
28	chr22:31433600-31435000	Weak transcription	Placenta	Placenta
29	chr22:31433600-31435000	Enhancers	Stomach Smooth Muscle	stomach
30	chr22:31433600-31435200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr22:31433600-31435400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr22:31433600-31435600	Weak transcription	Aorta	Aorta
33	chr22:31433600-31435600	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr22:31433600-31435800	Weak transcription	Left Ventricle	heart
35	chr22:31433600-31436000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr22:31433600-31436600	Enhancers	Rectal Smooth Muscle	rectum
37	chr22:31433600-31437000	Enhancers	Colon Smooth Muscle	Colon
38	chr22:31433600-31440200	Weak transcription	Fetal Intestine Large	intestine
39	chr22:31433600-31441400	Weak transcription	Spleen	Spleen
40	chr22:31433600-31442200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr22:31433600-31442600	Weak transcription	HSMM	muscle
42	chr22:31433800-31434200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr22:31433800-31434200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr22:31433800-31434200	Weak transcription	Ovary	ovary
45	chr22:31433800-31434400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr22:31433800-31434800	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr22:31433800-31446000	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links