Variant report

Variant	rs4930169
Chromosome Location	chr11:65806668-65806669
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:65806638..65808886-chr11:65819440..65821363,2	K562	blood:
2	chr11:65771785..65773874-chr11:65806005..65808785,2	K562	blood:
3	chr11:65690883..65692815-chr11:65804692..65807223,2	K562	blood:
4	chr11:65627802..65630146-chr11:65806224..65808283,2	K562	blood:
5	chr11:65806561..65808333-chr11:65818685..65820771,2	MCF-7	breast:
6	chr11:65805915..65809012-chr11:65818044..65820074,3	MCF-7	breast:
7	chr11:65772402..65774686-chr11:65805406..65808291,2	MCF-7	breast:
8	chr11:65806019..65808419-chr11:65809949..65812700,3	MCF-7	breast:
9	chr11:65790800..65793677-chr11:65804088..65806843,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000172757	Chromatin interaction
ENSG00000238752	Chromatin interaction
ENSG00000087365	Chromatin interaction
ENSG00000172732	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10896065	0.89[JPT][hapmap];1.00[MEX][hapmap]
rs11227393	1.00[EUR][1000 genomes]
rs11227396	1.00[EUR][1000 genomes]
rs12099359	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs12574568	0.92[CHB][hapmap];0.89[JPT][hapmap]
rs12575735	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs12576319	0.89[JPT][hapmap]
rs12576868	1.00[EUR][1000 genomes]
rs12577589	1.00[EUR][1000 genomes]
rs2241304	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2276015	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs2298446	1.00[EUR][1000 genomes]
rs28372938	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs35188698	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3814743	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3825068	0.92[CHB][hapmap];0.89[JPT][hapmap]
rs471203	1.00[MEX][hapmap]
rs477001	1.00[MEX][hapmap]
rs561869	1.00[MEX][hapmap]
rs565921	1.00[MEX][hapmap]
rs568423	1.00[MEX][hapmap]
rs58244723	1.00[EUR][1000 genomes]
rs601314	1.00[MEX][hapmap]
rs653955	0.89[JPT][hapmap]
rs669300	1.00[MEX][hapmap]
rs7940700	0.89[JPT][hapmap];1.00[MEX][hapmap]
rs9326362	0.89[JPT][hapmap]
rs9787882	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948711	chr11:65692760-65949674	Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases
2	nsv897768	chr11:65715210-65842064	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	61 gene(s)	inside rSNPs	diseases
3	nsv897769	chr11:65727799-65828625	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
4	esv3335923	chr11:65741698-66175759	Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
5	esv1819302	chr11:65787660-66007018	Active TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
6	esv3407551	chr11:65794503-66158322	Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
7	nsv897770	chr11:65803750-65824472	Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4930169	LOC404266	trans	lymphoblastoid	seeQTL

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65783400-65811200	Weak transcription	Aorta	Aorta
2	chr11:65790400-65812600	Weak transcription	Right Atrium	heart
3	chr11:65790400-65818600	Weak transcription	HSMM	muscle
4	chr11:65803800-65807600	Weak transcription	Adipose Nuclei	Adipose
5	chr11:65803800-65812400	Weak transcription	Pancreas	Pancrea
6	chr11:65805000-65810000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr11:65805000-65815800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr11:65805200-65806800	Weak transcription	Fetal Brain Female	brain
9	chr11:65805200-65808400	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr11:65805400-65808400	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr11:65805400-65808400	Weak transcription	Brain Germinal Matrix	brain
12	chr11:65805600-65807000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr11:65805600-65808400	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr11:65805600-65809000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr11:65805800-65809000	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr11:65805800-65809400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr11:65806000-65808600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr11:65806000-65810000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links