Variant report

Variant	rs9425725
Chromosome Location	chr1:173452142-173452143
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:173451862..173453905-chr1:173835308..173837153,3	K562	blood:
2	chr1:173450429..173453929-chr1:173454032..173458436,7	MCF-7	breast:
3	chr1:173451420..173453905-chr1:173835308..173838372,3	K562	blood:

Variant related genes	Relation type
ENSG00000234741	Chromatin interaction
ENSG00000185278	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10732994	1.00[AMR][1000 genomes]
rs10737302	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs16846025	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846029	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846055	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs16846090	1.00[AMR][1000 genomes]
rs16846099	1.00[AMR][1000 genomes]
rs16846103	1.00[AMR][1000 genomes]
rs16846122	1.00[AMR][1000 genomes]
rs16846125	1.00[AMR][1000 genomes]
rs16846129	1.00[AMR][1000 genomes]
rs16846173	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs16846204	1.00[AMR][1000 genomes]
rs35581908	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4342885	1.00[AMR][1000 genomes]
rs4354572	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs4567310	1.00[AMR][1000 genomes]
rs4636504	0.83[YRI][hapmap];1.00[AMR][1000 genomes]
rs56043618	1.00[AMR][1000 genomes]
rs56236728	0.87[AMR][1000 genomes]
rs59041016	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60055251	0.87[AMR][1000 genomes]
rs60769229	0.87[AMR][1000 genomes]
rs6663036	0.87[AMR][1000 genomes]
rs7513591	1.00[AMR][1000 genomes]
rs7513763	1.00[AMR][1000 genomes]
rs9425410	1.00[AMR][1000 genomes]
rs9425722	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425727	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831915	chr1:173268424-173482157	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173447800-173452800	Weak transcription	Pancreas	Pancrea
2	chr1:173448000-173477000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr1:173448600-173459800	Strong transcription	Fetal Muscle Trunk	muscle
4	chr1:173448800-173458200	Strong transcription	Primary B cells from cord blood	blood
5	chr1:173448800-173459400	Weak transcription	Stomach Mucosa	stomach
6	chr1:173448800-173460000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr1:173449000-173454400	Weak transcription	Small Intestine	intestine
8	chr1:173449000-173458600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:173449000-173458800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr1:173449000-173458800	Strong transcription	Fetal Intestine Large	intestine
11	chr1:173449000-173459400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:173449000-173459400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr1:173449200-173456400	Strong transcription	Placenta	Placenta
14	chr1:173449200-173456600	Strong transcription	ES-I3 Cell Line	embryonic stem cell
15	chr1:173449200-173457000	Strong transcription	Fetal Kidney	kidney
16	chr1:173449200-173458800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr1:173449200-173459600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr1:173449400-173456200	Weak transcription	Fetal Heart	heart
19	chr1:173449400-173457800	Strong transcription	NHDF-Ad	bronchial
20	chr1:173449400-173458000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
21	chr1:173449400-173458600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
22	chr1:173449400-173458800	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr1:173449400-173459200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr1:173449600-173453000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr1:173449600-173457400	Strong transcription	NHEK	skin
26	chr1:173449600-173458000	Strong transcription	HUES48 Cell Line	embryonic stem cell
27	chr1:173449600-173458600	Strong transcription	Primary hematopoietic stem cells	blood
28	chr1:173449600-173458600	Strong transcription	HMEC	breast
29	chr1:173449600-173458600	Strong transcription	HUVEC	blood vessel
30	chr1:173449600-173458600	Strong transcription	NH-A	brain
31	chr1:173449600-173458600	Strong transcription	Osteobl	bone
32	chr1:173449600-173458800	Strong transcription	HUES6 Cell Line	embryonic stem cell
33	chr1:173449600-173458800	Strong transcription	HUES64 Cell Line	embryonic stem cell
34	chr1:173449600-173458800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr1:173449600-173458800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
36	chr1:173449600-173458800	Strong transcription	Rectal Mucosa Donor 29	rectum
37	chr1:173449600-173459200	Strong transcription	Muscle Satellite Cultured Cells	--
38	chr1:173449600-173459400	Strong transcription	H1 Cell Line	embryonic stem cell
39	chr1:173449600-173459400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
40	chr1:173449600-173459400	Strong transcription	HSMM	muscle
41	chr1:173449600-173459600	Strong transcription	Primary T helper cells fromperipheralblood	blood
42	chr1:173449600-173460000	Strong transcription	A549	lung
43	chr1:173449800-173452200	Genic enhancers	GM12878-XiMat	blood
44	chr1:173449800-173454400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr1:173449800-173457800	Strong transcription	iPS-15b Cell Line	embryonic stem cell
46	chr1:173449800-173458400	Strong transcription	Hela-S3	cervix
47	chr1:173449800-173458600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr1:173449800-173458800	Strong transcription	Fetal Thymus	thymus
49	chr1:173449800-173459000	Strong transcription	Fetal Muscle Leg	muscle
50	chr1:173449800-173459200	Strong transcription	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links