Variant report

Variant	rs61650117
Chromosome Location	chr9:22115953-22115954
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:22106343..22112134-chr9:22114356..22121456,14	MCF-7	breast:
2	chr9:22113925..22116012-chr9:22117761..22119700,2	MCF-7	breast:
3	chr9:22115148..22116731-chr9:22237636..22239913,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MTAP-1	chr9:22112761-22118822	NONHSAT130433

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs59995170	1.00[AFR][1000 genomes]
rs60123355	1.00[AFR][1000 genomes]
rs60601001	1.00[AFR][1000 genomes]
rs73438868	1.00[AFR][1000 genomes]
rs73441209	1.00[AFR][1000 genomes]
rs73441213	1.00[AFR][1000 genomes]
rs73441281	1.00[AFR][1000 genomes]
rs73441296	1.00[AFR][1000 genomes]
rs73441297	1.00[AFR][1000 genomes]
rs73441298	1.00[AFR][1000 genomes]
rs73443203	0.94[AFR][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	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv8426	chr9:21763810-22176200	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv531617	chr9:21985057-22809676	Genic enhancers Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:22097800-22122400	Weak transcription	Dnd41	blood
2	chr9:22104600-22116600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:22105800-22117400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr9:22106600-22117600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr9:22107600-22116800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr9:22107600-22117200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr9:22109000-22117600	Weak transcription	Adipose Nuclei	Adipose
8	chr9:22111400-22116200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr9:22112400-22116400	Weak transcription	HUVEC	blood vessel
10	chr9:22112400-22116600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:22112400-22116600	Weak transcription	HSMM	muscle
12	chr9:22112400-22117400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr9:22112600-22116400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr9:22112600-22117600	Weak transcription	HMEC	breast
15	chr9:22112800-22117800	Active TSS	Rectal Mucosa Donor 29	rectum
16	chr9:22113400-22119800	Weak transcription	Small Intestine	intestine
17	chr9:22113800-22117400	Weak transcription	Stomach Mucosa	stomach
18	chr9:22114200-22116600	Weak transcription	Duodenum Mucosa	Duodenum
19	chr9:22114200-22117200	Weak transcription	Fetal Intestine Large	intestine
20	chr9:22114400-22117400	Active TSS	Rectal Mucosa Donor 31	rectum
21	chr9:22114600-22116600	Weak transcription	Fetal Intestine Small	intestine
22	chr9:22115000-22116600	Weak transcription	Colonic Mucosa	Colon
23	chr9:22115000-22117400	Enhancers	Hela-S3	cervix
24	chr9:22115000-22119600	Enhancers	NHLF	lung
25	chr9:22115200-22117400	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr9:22115200-22117600	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr9:22115400-22116600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr9:22115400-22116600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr9:22115400-22116600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr9:22115400-22116600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr9:22115400-22116600	Weak transcription	Osteobl	bone
32	chr9:22115400-22116800	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr9:22115400-22116800	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr9:22115600-22116600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr9:22115600-22116600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr9:22115600-22116600	Weak transcription	HSMMtube	muscle
37	chr9:22115600-22116600	Weak transcription	NHDF-Ad	bronchial
38	chr9:22115600-22117400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr9:22115600-22117600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr9:22115800-22116200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr9:22115800-22116200	Weak transcription	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links