Variant report

Variant	rs9913026
Chromosome Location	chr17:46724233-46724234
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:46722567..46724409-chr17:46893384..46896337,2	K562	blood:
2	chr12:76953376..76953970-chr17:46723872..46724869,2	HCT-116	colon:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HOXB7-1	chr17:46723967-46724385	XLOC_012505
2	lnc-HOXB7-1	chr17:46723967-46724385	ENSG00000272763.1

Variant related genes	Relation type
ENSG00000170703	Chromatin interaction
ENSG00000091039	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1057201	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11651729	0.84[ASN][1000 genomes]
rs11652932	0.85[ASN][1000 genomes]
rs11652981	0.85[ASN][1000 genomes]
rs12938558	0.85[ASN][1000 genomes]
rs2303486	0.84[ASN][1000 genomes]
rs2303487	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2326016	0.84[ASN][1000 genomes]
rs2326017	0.81[AFR][1000 genomes]
rs2875820	0.80[ASN][1000 genomes]
rs3744772	0.82[AFR][1000 genomes]
rs3809775	0.83[ASN][1000 genomes]
rs3809780	0.82[ASN][1000 genomes]
rs4793596	0.82[AFR][1000 genomes]
rs4793963	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs731748	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs890435	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9913020	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3420538	chr17:46504944-46861553	Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	369 gene(s)	inside rSNPs	diseases
2	nsv908579	chr17:46592413-46727289	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	349 gene(s)	inside rSNPs	diseases
3	nsv532113	chr17:46598247-47588570	Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	453 gene(s)	inside rSNPs	diseases
4	esv2758459	chr17:46602673-46836837	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	364 gene(s)	inside rSNPs	diseases
5	esv2758694	chr17:46602673-46836837	Active TSS Bivalent Enhancer Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	364 gene(s)	inside rSNPs	diseases
6	nsv908581	chr17:46610646-46735520	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	349 gene(s)	inside rSNPs	diseases
7	nsv833471	chr17:46617787-46783345	Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	356 gene(s)	inside rSNPs	diseases
8	nsv908584	chr17:46618926-46735520	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	348 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46722000-46724400	Bivalent/Poised TSS	Sigmoid Colon	Sigmoid Colon
2	chr17:46722000-46724800	Active TSS	Rectal Mucosa Donor 31	rectum
3	chr17:46722000-46725400	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr17:46722400-46725200	Active TSS	A549	lung
5	chr17:46722600-46724600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr17:46722600-46725400	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
7	chr17:46722800-46724800	Active TSS	K562	blood
8	chr17:46722800-46725000	Bivalent/Poised TSS	Small Intestine	intestine
9	chr17:46723000-46724400	Active TSS	Hela-S3	cervix
10	chr17:46723000-46725400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
11	chr17:46723000-46725400	Bivalent/Poised TSS	Fetal Intestine Small	intestine
12	chr17:46723200-46724800	Bivalent/Poised TSS	Colonic Mucosa	Colon
13	chr17:46723400-46724600	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
14	chr17:46723400-46724600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
15	chr17:46723400-46724600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
16	chr17:46723400-46724600	Bivalent Enhancer	Fetal Brain Female	brain
17	chr17:46723400-46724800	Bivalent Enhancer	Fetal Stomach	stomach
18	chr17:46723400-46724800	Bivalent Enhancer	Fetal Thymus	thymus
19	chr17:46723400-46725000	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
20	chr17:46723400-46725200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
21	chr17:46723400-46725200	Bivalent/Poised TSS	HSMM	muscle
22	chr17:46723600-46724400	Bivalent Enhancer	Lung	lung
23	chr17:46723600-46724600	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
24	chr17:46723600-46724600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
25	chr17:46723600-46724600	Bivalent Enhancer	Fetal Muscle Leg	muscle
26	chr17:46723600-46724600	Active TSS	GM12878-XiMat	blood
27	chr17:46723600-46724800	Active TSS	Rectal Mucosa Donor 29	rectum
28	chr17:46723600-46725000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
29	chr17:46723600-46725200	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr17:46723600-46725200	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
31	chr17:46723600-46725200	Flanking Bivalent TSS/Enh	Primary T helper cells PMA-I stimulated	--
32	chr17:46723600-46725400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
33	chr17:46723600-46725400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr17:46723600-46725400	Enhancers	Pancreas	Pancrea
35	chr17:46723800-46724400	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr17:46723800-46724600	Bivalent Enhancer	Brain Hippocampus Middle	brain
37	chr17:46723800-46724600	Bivalent Enhancer	Placenta	Placenta
38	chr17:46723800-46724800	Bivalent/Poised TSS	Esophagus	oesophagus
39	chr17:46723800-46724800	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
40	chr17:46723800-46725000	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
41	chr17:46723800-46725200	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
42	chr17:46724000-46724400	Bivalent/Poised TSS	Primary T cells from cord blood	blood
43	chr17:46724000-46724400	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr17:46724000-46724600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr17:46724000-46724600	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
46	chr17:46724000-46724600	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
47	chr17:46724000-46724600	Active TSS	Primary T killer naive cells fromperipheralblood	blood
48	chr17:46724000-46724600	Bivalent Enhancer	Brain Dorsolateral Prefrontal Cortex	brain
49	chr17:46724000-46724600	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
50	chr17:46724000-46724800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links