Variant report

Variant	rs3829365
Chromosome Location	chr13:38172896-38172897
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:13)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:13 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr13:38172590-38173094	SK-N-SH	brain:	n/a	n/a
2	PBX3	chr13:38172698-38173044	SK-N-SH	brain:	n/a	n/a
3	EP300	chr13:38172701-38173012	SK-N-SH_RA	brain:	n/a	n/a
4	POLR2A	chr13:38172730-38173026	SK-N-SH	brain:	n/a	n/a
5	TAF1	chr13:38172701-38173016	SK-N-SH	brain:	n/a	n/a
6	TCF12	chr13:38172591-38173070	SK-N-SH	brain:	n/a	n/a
7	POLR2A	chr13:38172596-38173023	PFSK-1	brain:	n/a	n/a
8	POLR2A	chr13:38172600-38173112	SK-N-SH	brain:	n/a	n/a
9	POLR2A	chr13:38172549-38173234	PFSK-1	brain:	n/a	n/a
10	POLR2A	chr13:38172811-38172953	MCF10A-Er-Src	breast:	n/a	n/a
11	POLR2A	chr13:38172705-38173039	MCF10A-Er-Src	breast:	n/a	n/a
12	POLR2A	chr13:38172666-38172959	ProgFib	skin:	n/a	n/a
13	EP300	chr13:38172699-38173061	SK-N-SH_RA	brain:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr13:38172876-38172926	HUVEC	blood vessel:	n/a
2	chr13:38172876-38172926	GM12892	blood:	n/a
3	chr13:38172876-38172926	GM19239	blood:	n/a
4	chr13:38172876-38172926	PANC-1	pancreas:	n/a
5	chr13:38172876-38172926	NHBE	bronchial:	n/a
6	chr13:38172876-38172926	AG04450	lung:	fetal
7	chr13:38172876-38172926	HRPEpiC	eye:	n/a
8	chr13:38172876-38172926	HEEpiC	esophagus:	n/a
9	chr13:38172876-38172926	HCF	heart:	n/a
10	chr13:38172876-38172926	NB4	blood:	n/a
11	chr13:38172876-38172926	HCT-116	colon:	n/a
12	chr13:38172876-38172926	AoSMC	blood vessel:	n/a
13	chr13:38172876-38172926	SK-N-SH_RA	brain:	n/a
14	chr13:38172876-38172926	HIPEpiC	eye:	n/a
15	chr13:38172876-38172926	Jurkat	blood:	n/a
16	chr13:38172876-38172926	LNCaP	prostate:	n/a
17	chr13:38172876-38172926	CMK	blood:	n/a
18	chr13:38172876-38172926	ECC-1	luminal epithelium:	n/a
19	chr13:38172876-38172926	ProgFib	skin:	n/a
20	chr13:38172876-38172926	HCPEpiC	choroid plexus:	n/a
21	chr13:38172876-38172926	AG09319	gingival:	n/a
22	chr13:38172876-38172926	SKMC	muscle:	n/a
23	chr13:38172876-38172926	BJ	skin:	n/a
24	chr13:38172876-38172926	MCF10A-Er-Src	breast:	n/a
25	chr13:38172876-38172926	HMEC	breast:	n/a
26	chr13:38172876-38172926	AG04449	skin:	fetal
27	chr13:38172876-38172926	HL-60	blood:	n/a
28	chr13:38172876-38172926	NH-A	brain:	n/a
29	chr13:38172876-38172926	HepG2	liver:	n/a
30	chr13:38172876-38172926	Hela-S3	cervix:	n/a
31	chr13:38172876-38172926	A549	lung:	n/a
32	chr13:38172876-38172926	HAEpiC	amniotic membrane:	n/a
33	chr13:38172876-38172926	Hepatocyte	liver:	n/a
34	chr13:38172876-38172926	HRE	kidney:	n/a
35	chr13:38172876-38172926	RPTEC	kidney:	n/a
36	chr13:38172876-38172926	AG09309	skin:	n/a
37	chr13:38172876-38172926	GM12891	blood:	n/a
38	chr13:38172876-38172926	SK-N-SH	brain:	n/a
39	chr13:38172876-38172926	HCM	heart:	n/a
40	chr13:38172876-38172926	U87	brain:	n/a
41	chr13:38172876-38172926	HRCEpiC	kidney:	n/a
42	chr13:38172876-38172926	HNPCEpiC	eye:	n/a
43	chr13:38172876-38172926	AG10803	skin:	n/a
44	chr13:38172876-38172926	H1-hESC	embryonic stem cell:	embryo
45	chr13:38172876-38172926	Caco-2	colon:	n/a
46	chr13:38172876-38172926	GM06990	blood:	n/a
47	chr13:38172876-38172926	ovcar-3	ovarian:	n/a
48	chr13:38172876-38172926	HEK293	kidney:	embryo
49	chr13:38172876-38172926	GM12878	blood:	n/a
50	chr13:38172876-38172926	HPAEpiC	pulmonary alveolar:	n/a

No data

Variant related genes	Relation type
POSTN	TF binding region
POSTN	CpG island

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12866877	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12871092	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17056197	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4941874	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9566240	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9566244	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][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	nsv948975	chr13:37281203-38280430	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1038850	chr13:37820489-38209571	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv34109	chr13:37843819-38276391	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1045716	chr13:37952062-38394595	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv832583	chr13:38030752-38202000	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:38165800-38182400	Weak transcription	Placenta	Placenta
2	chr13:38168800-38173400	Active TSS	Fetal Muscle Trunk	muscle
3	chr13:38169200-38173000	Active TSS	NH-A	brain
4	chr13:38169400-38173600	Active TSS	NHLF	lung
5	chr13:38169800-38175600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr13:38169800-38175600	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr13:38170400-38173400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr13:38170400-38173600	Active TSS	Fetal Stomach	stomach
9	chr13:38170600-38173600	Active TSS	Breast Myoepithelial Primary Cells	Breast
10	chr13:38170600-38174200	Active TSS	Fetal Muscle Leg	muscle
11	chr13:38170800-38173000	Active TSS	Rectal Mucosa Donor 29	rectum
12	chr13:38170800-38173200	Active TSS	Right Atrium	heart
13	chr13:38171000-38173000	Active TSS	Fetal Adrenal Gland	Adrenal Gland
14	chr13:38171000-38173200	Active TSS	Adipose Nuclei	Adipose
15	chr13:38171200-38173000	Active TSS	Duodenum Smooth Muscle	Duodenum
16	chr13:38171200-38173000	Active TSS	Fetal Intestine Large	intestine
17	chr13:38171200-38173200	Active TSS	Muscle Satellite Cultured Cells	--
18	chr13:38171200-38173400	Active TSS	Fetal Lung	lung
19	chr13:38171200-38173600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr13:38171200-38173600	Active TSS	Stomach Smooth Muscle	stomach
21	chr13:38171400-38173000	Active TSS	Colon Smooth Muscle	Colon
22	chr13:38171400-38173800	Active TSS	Osteobl	bone
23	chr13:38171600-38173000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr13:38171600-38173400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr13:38171600-38173800	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr13:38171800-38173200	Enhancers	iPS-18 Cell Line	embryonic stem cell
27	chr13:38172000-38175400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr13:38172200-38175600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr13:38172600-38173000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
30	chr13:38172600-38173000	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr13:38172600-38173000	Enhancers	iPS-20b Cell Line	embryonic stem cell
32	chr13:38172600-38173000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr13:38172600-38173000	Active TSS	Left Ventricle	heart
34	chr13:38172600-38173000	Flanking Active TSS	NHDF-Ad	bronchial
35	chr13:38172600-38173600	Enhancers	NHEK	skin
36	chr13:38172800-38173000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr13:38172800-38173000	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr13:38172800-38173000	Flanking Active TSS	Fetal Kidney	kidney
39	chr13:38172800-38173000	Flanking Active TSS	Rectal Smooth Muscle	rectum
40	chr13:38172800-38173200	Enhancers	H1 Cell Line	embryonic stem cell
41	chr13:38172800-38174200	Enhancers	HUVEC	blood vessel
42	chr13:38172800-38175600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links