Variant report

Variant	rs73389504
Chromosome Location	chr15:40454572-40454573
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:40074957..40076542-chr15:40453095..40454705,2	K562	blood:
2	chr15:40453162..40454809-chr15:40641409..40643606,2	K562	blood:
3	chr15:40448813..40450482-chr15:40453817..40455568,2	K562	blood:
4	chr15:40330665..40333715-chr15:40453352..40456401,3	K562	blood:
5	chr15:40453347..40454874-chr15:40466199..40468007,2	K562	blood:
6	chr15:40453925..40456102-chr15:40486988..40489014,2	MCF-7	breast:
7	chr15:40371657..40374195-chr15:40453312..40456256,2	K562	blood:
8	chr15:40399053..40404293-chr15:40451574..40455090,8	MCF-7	breast:
9	chr15:40452220..40455176-chr15:40475826..40477725,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000150667	Chromatin interaction
ENSG00000248508	Chromatin interaction
ENSG00000233041	Chromatin interaction
ENSG00000156970	Chromatin interaction
ENSG00000104081	Chromatin interaction
ENSG00000140319	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs28561898	0.82[AFR][1000 genomes]
rs28605810	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28817922	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56971100	0.83[AMR][1000 genomes]
rs57774408	1.00[AMR][1000 genomes]
rs7175040	0.83[AMR][1000 genomes]
rs73389525	1.00[AMR][1000 genomes]
rs73391318	1.00[AMR][1000 genomes]
rs73392615	0.83[AMR][1000 genomes]
rs73392627	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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40452600-40455000	Active TSS	A549	lung
2	chr15:40452600-40455800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr15:40452800-40454600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
4	chr15:40452800-40454600	Active TSS	HUES64 Cell Line	embryonic stem cell
5	chr15:40452800-40454600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr15:40452800-40455000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr15:40452800-40455200	Active TSS	H9 Cell Line	embryonic stem cell
8	chr15:40452800-40455400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr15:40452800-40455400	Active TSS	Fetal Brain Female	brain
10	chr15:40452800-40455400	Active TSS	HSMM	muscle
11	chr15:40453000-40454600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr15:40453000-40454600	Active TSS	iPS-15b Cell Line	embryonic stem cell
13	chr15:40453000-40454600	Active TSS	K562	blood
14	chr15:40453000-40454800	Active TSS	HUES6 Cell Line	embryonic stem cell
15	chr15:40453000-40454800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr15:40453000-40454800	Active TSS	Fetal Intestine Large	intestine
17	chr15:40453000-40454800	Active TSS	Fetal Intestine Small	intestine
18	chr15:40453000-40455000	Active TSS	H1 Cell Line	embryonic stem cell
19	chr15:40453000-40455000	Active TSS	NH-A	brain
20	chr15:40453000-40455200	Active TSS	ES-I3 Cell Line	embryonic stem cell
21	chr15:40453000-40455200	Active TSS	iPS-20b Cell Line	embryonic stem cell
22	chr15:40453000-40456400	Active TSS	GM12878-XiMat	blood
23	chr15:40453200-40454600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr15:40453200-40454600	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:40453200-40454600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr15:40453200-40454600	Active TSS	Fetal Thymus	thymus
27	chr15:40453200-40454600	Active TSS	HMEC	breast
28	chr15:40453200-40454800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr15:40453200-40454800	Active TSS	Rectal Mucosa Donor 31	rectum
30	chr15:40453200-40455000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr15:40453200-40455200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
32	chr15:40453200-40455400	Active TSS	HUES48 Cell Line	embryonic stem cell
33	chr15:40453200-40455400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr15:40453400-40454600	Flanking Active TSS	Brain Germinal Matrix	brain
35	chr15:40453400-40455000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
36	chr15:40453400-40455600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr15:40453400-40456600	Transcr. at gene 5' and 3'	Dnd41	blood
38	chr15:40453600-40454800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr15:40453600-40455400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr15:40453800-40454600	Weak transcription	Stomach Mucosa	stomach
41	chr15:40453800-40454800	Active TSS	Fetal Muscle Trunk	muscle
42	chr15:40453800-40455400	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr15:40453800-40455800	Flanking Active TSS	HUVEC	blood vessel
44	chr15:40453800-40460200	Weak transcription	Right Atrium	heart
45	chr15:40453800-40474600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr15:40453800-40525000	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr15:40454000-40454600	Flanking Active TSS	Fetal Stomach	stomach
48	chr15:40454000-40454800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr15:40454000-40454800	Enhancers	Primary B cells from cord blood	blood
50	chr15:40454000-40454800	Active TSS	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links