Variant report

Variant	rs7764822
Chromosome Location	chr6:70990470-70990471
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NFIC	chr6:70990160-70990626	ECC-1	luminal epithelium:	n/a	n/a
2	NFIC	chr6:70990039-70990660	ECC-1	luminal epithelium:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:70969310..70971265-chr6:70989015..70991528,2	K562	blood:
2	chr6:70983202..70984971-chr6:70988155..70990490,2	K562	blood:

Variant related genes	Relation type
COL9A1	TF binding region
ENSG00000112280	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs3806095	0.84[YRI][hapmap];0.82[AFR][1000 genomes]
rs6455360	0.84[CEU][hapmap];0.81[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932111	chr6:70736835-71633094	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv886142	chr6:70741209-71251421	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1027049	chr6:70961610-71561488	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv524328	chr6:70961833-71558805	Flanking Bivalent TSS/Enh Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv917312	chr6:70961903-71601688	Enhancers Genic enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:70965200-70991600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:70979000-70991600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:70981400-70991200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:70984200-70992000	Weak transcription	Gastric	stomach
5	chr6:70987600-70991600	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr6:70987600-70992000	Weak transcription	Right Atrium	heart
7	chr6:70989800-70990600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:70990000-70990600	Enhancers	Esophagus	oesophagus
9	chr6:70990000-70990600	Enhancers	Fetal Brain Female	brain
10	chr6:70990000-70990800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr6:70990000-70991600	Enhancers	K562	blood
12	chr6:70990000-70992800	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr6:70990000-70993400	Enhancers	Fetal Brain Male	brain
14	chr6:70990200-70990600	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
15	chr6:70990200-70990600	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
16	chr6:70990200-70990600	Enhancers	Pancreas	Pancrea
17	chr6:70990200-70990800	Bivalent Enhancer	Brain Dorsolateral Prefrontal Cortex	brain
18	chr6:70990200-70991600	Enhancers	Brain Germinal Matrix	brain
19	chr6:70990200-70991600	Bivalent Enhancer	Fetal Stomach	stomach
20	chr6:70990400-70990600	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr6:70990400-70990600	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:70990400-70990600	Bivalent Enhancer	Fetal Lung	lung
23	chr6:70990400-70990600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
24	chr6:70990400-70990600	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links