Variant report

Variant	rs928371
Chromosome Location	chr15:41822725-41822726
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	YY1	chr15:41822484-41823246	SK-N-SH_RA	brain:	n/a	chr15:41822842-41822861 chr15:41822847-41822855
2	MXI1	chr15:41822332-41823483	SK-N-SH	brain:	n/a	n/a
3	YY1	chr15:41822576-41823065	SK-N-SH_RA	brain:	n/a	chr15:41822842-41822861 chr15:41822847-41822855
4	EP300	chr15:41822492-41823250	SK-N-SH_RA	brain:	n/a	n/a
5	RAD21	chr15:41822551-41822998	SK-N-SH_RA	brain:	n/a	n/a
6	EP300	chr15:41822080-41823482	SK-N-SH	brain:	n/a	n/a
7	EP300	chr15:41822448-41823266	SK-N-SH_RA	brain:	n/a	n/a
8	RAD21	chr15:41822483-41823022	SK-N-SH_RA	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:41813214..41815867-chr15:41821195..41823790,3	K562	blood:
2	chr15:41819746..41824231-chr15:41825451..41829235,5	K562	blood:
3	chr15:41813214..41815755-chr15:41821195..41823682,2	K562	blood:
4	chr15:41821217..41823173-chr15:41825451..41828342,2	K562	blood:
5	chr15:41791755..41794361-chr15:41822033..41824334,2	K562	blood:

Variant related genes	Relation type
RPAP1	TF binding region
ENSG00000103932	Chromatin interaction
ENSG00000137825	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11070337	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11855280	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11855347	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11858529	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11858969	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12101764	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12101781	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12441959	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12593440	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16971858	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs16971861	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2289741	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2305031	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4923901	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4923902	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4923903	0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs56786077	0.85[AMR][1000 genomes];1.00[EUR][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	nsv904112	chr15:41806658-41836234	Weak transcription Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	13 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	chr15:41806400-41835200	Weak transcription	Right Atrium	heart
2	chr15:41806600-41824600	Weak transcription	Fetal Kidney	kidney
3	chr15:41806600-41835200	Weak transcription	Fetal Heart	heart
4	chr15:41807200-41835600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr15:41808000-41829600	Strong transcription	Fetal Stomach	stomach
6	chr15:41808600-41823000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr15:41808600-41829200	Strong transcription	Skeletal Muscle Female	skeletal muscle
8	chr15:41808600-41829600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr15:41808600-41835400	Weak transcription	Fetal Brain Male	brain
10	chr15:41808800-41829600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr15:41809000-41829400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr15:41809000-41829400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:41809600-41829200	Strong transcription	Skeletal Muscle Male	skeletal muscle
14	chr15:41809600-41829400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr15:41811600-41829600	Strong transcription	Fetal Intestine Large	intestine
16	chr15:41811600-41829800	Strong transcription	Fetal Muscle Leg	muscle
17	chr15:41811800-41829400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:41811800-41829400	Strong transcription	Brain Hippocampus Middle	brain
19	chr15:41811800-41829400	Strong transcription	Stomach Smooth Muscle	stomach
20	chr15:41811800-41829600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr15:41811800-41829600	Strong transcription	Brain Anterior Caudate	brain
22	chr15:41812000-41822800	Strong transcription	Placenta	Placenta
23	chr15:41812000-41823200	Strong transcription	Adipose Nuclei	Adipose
24	chr15:41812000-41829600	Strong transcription	Monocytes-CD14+_RO01746	blood
25	chr15:41812200-41822800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr15:41812200-41823200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr15:41812200-41828800	Strong transcription	Brain Inferior Temporal Lobe	brain
28	chr15:41812200-41829200	Strong transcription	Duodenum Mucosa	Duodenum
29	chr15:41812200-41829600	Strong transcription	HUES6 Cell Line	embryonic stem cell
30	chr15:41812200-41829600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr15:41812400-41823200	Strong transcription	Fetal Muscle Trunk	muscle
32	chr15:41812400-41823200	Strong transcription	Lung	lung
33	chr15:41812400-41823600	Strong transcription	Gastric	stomach
34	chr15:41812400-41823800	Strong transcription	Fetal Brain Female	brain
35	chr15:41812400-41829200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr15:41812400-41829400	Strong transcription	H1 Cell Line	embryonic stem cell
37	chr15:41812400-41829400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr15:41812400-41829400	Strong transcription	Liver	Liver
39	chr15:41812400-41829400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr15:41812400-41829400	Strong transcription	Fetal Intestine Small	intestine
41	chr15:41812400-41829400	Strong transcription	Left Ventricle	heart
42	chr15:41812400-41829600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr15:41812600-41823200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr15:41812600-41829400	Strong transcription	Brain Germinal Matrix	brain
45	chr15:41812600-41829400	Strong transcription	Pancreas	Pancrea
46	chr15:41812600-41829600	Strong transcription	Sigmoid Colon	Sigmoid Colon
47	chr15:41812800-41828800	Strong transcription	Primary T helper cells fromperipheralblood	blood
48	chr15:41813000-41829600	Strong transcription	Primary T cells from cord blood	blood
49	chr15:41814400-41829600	Strong transcription	Rectal Mucosa Donor 29	rectum
50	chr15:41815000-41829400	Strong transcription	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links