Variant report

Variant	rs12006305
Chromosome Location	chr9:94716872-94716873
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:30)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:30 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr9:94716760-94716910	HEEpiC	esophagus:	n/a	n/a
2	CTCF	chr9:94716820-94716970	GM12871	blood:	n/a	n/a
3	CTCF	chr9:94716780-94716930	K562	blood:	n/a	n/a
4	CTCF	chr9:94716828-94716945	GM12892	blood:	n/a	n/a
5	CTCF	chr9:94716565-94717583	A549	lung:	n/a	n/a
6	SMC3	chr9:94716855-94717674	SK-N-SH	brain:	n/a	n/a
7	CTCF	chr9:94716760-94716910	GM12878	blood:	n/a	n/a
8	CTCF	chr9:94716820-94716970	HMEC	breast:	n/a	n/a
9	CTCF	chr9:94716760-94716910	SAEC	small airway:	n/a	n/a
10	CTCF	chr9:94716832-94716937	GM19238	blood:	n/a	n/a
11	CTCF	chr9:94716820-94716970	GM12864	blood:	n/a	n/a
12	CTCF	chr9:94716800-94716950	GM12865	blood:	n/a	n/a
13	CTCF	chr9:94716835-94716881	MCF-7	breast:	n/a	n/a
14	CTCF	chr9:94716825-94716940	GM19240	blood:	n/a	n/a
15	CTCF	chr9:94716829-94716929	K562	blood:	n/a	n/a
16	RCOR1	chr9:94716835-94717386	K562	blood:	n/a	n/a
17	CTCF	chr9:94716740-94716890	GM12864	blood:	n/a	n/a
18	CTCF	chr9:94716800-94716950	GM06990	blood:	n/a	n/a
19	CTCF	chr9:94716839-94717573	HCT-116	colon:	n/a	n/a
20	CTCF	chr9:94716593-94717702	SK-N-SH	brain:	n/a	n/a
21	CTCF	chr9:94716780-94716930	AG04449	skin:	n/a	n/a
22	CTCF	chr9:94716860-94717010	GM12870	blood:	n/a	n/a
23	CTCF	chr9:94716740-94716890	GM12866	blood:	n/a	n/a
24	CTCF	chr9:94716820-94716970	HAc	cerebellar:	n/a	n/a
25	CTCF	chr9:94716827-94716935	GM12891	blood:	n/a	n/a
26	CTCF	chr9:94716859-94716957	GM10266	blood:	n/a	n/a
27	RAD21	chr9:94716484-94717988	SK-N-SH	brain:	n/a	n/a
28	CTCF	chr9:94716760-94716910	GM12872	blood:	n/a	n/a
29	CTCF	chr9:94716868-94716931	GM13977	blood:	n/a	n/a
30	MXI1	chr9:94716637-94717757	IMR90	lung:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:94712364..94714252-chr9:94715571..94717814,2	MCF-7	breast:
2	chr9:94716733..94717616-chr9:94740737..94741745,6	MCF-7	breast:
3	chr9:94711196..94714012-chr9:94715764..94719304,3	K562	blood:
4	chr9:94708402..94710475-chr9:94715730..94717686,2	K562	blood:
5	chr9:94714238..94717195-chr9:94796671..94799619,2	MCF-7	breast:
6	chr9:94714221..94717070-chr9:94719717..94722305,2	K562	blood:

No data

Variant related genes	Relation type
ROR2	TF binding region
ENSG00000169071	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12001058	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12685556	1.00[AMR][1000 genomes]
rs7863502	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047426	chr9:94363211-94758114	Weak transcription Bivalent Enhancer Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
2	nsv949008	chr9:94500776-95182133	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv1050845	chr9:94687959-95312406	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
4	nsv1046733	chr9:94690622-95138564	Genic enhancers Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv831653	chr9:94692454-94867542	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv530947	chr9:94697309-95093377	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94711200-94717000	Weak transcription	Fetal Heart	heart
2	chr9:94713400-94720200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:94713400-94720600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr9:94713600-94717200	Weak transcription	Fetal Lung	lung
5	chr9:94713600-94717200	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr9:94713800-94717000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr9:94714800-94717200	Weak transcription	Adipose Nuclei	Adipose
8	chr9:94714800-94717200	Weak transcription	Pancreas	Pancrea
9	chr9:94715600-94717600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr9:94716000-94717400	Enhancers	Esophagus	oesophagus
11	chr9:94716000-94717400	Enhancers	Stomach Mucosa	stomach
12	chr9:94716400-94717000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr9:94716400-94717000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr9:94716400-94717600	Enhancers	Gastric	stomach
15	chr9:94716600-94717000	Enhancers	Colon Smooth Muscle	Colon
16	chr9:94716600-94717200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr9:94716600-94717200	Enhancers	HSMMtube	muscle
18	chr9:94716600-94717200	Enhancers	K562	blood
19	chr9:94716600-94717200	Enhancers	NH-A	brain
20	chr9:94716600-94717400	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
21	chr9:94716600-94717600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr9:94716600-94719000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr9:94716800-94717000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr9:94716800-94717000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr9:94716800-94717000	Enhancers	Muscle Satellite Cultured Cells	--
26	chr9:94716800-94717000	Enhancers	NHDF-Ad	bronchial
27	chr9:94716800-94717000	Active TSS	NHLF	lung
28	chr9:94716800-94717200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr9:94716800-94717200	Enhancers	Duodenum Mucosa	Duodenum
30	chr9:94716800-94717400	Enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr9:94716800-94717600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr9:94716800-94717600	Enhancers	Fetal Stomach	stomach
33	chr9:94716800-94717600	Flanking Active TSS	Stomach Smooth Muscle	stomach
34	chr9:94716800-94717600	Flanking Active TSS	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links