Variant report

Variant	rs3805737
Chromosome Location	chr5:126169210-126169211
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:126112699..126114424-chr5:126168644..126170426,2	K562	blood:
2	chr5:126112757..126115364-chr5:126169186..126171205,2	MCF-7	breast:
3	chr5:126162869..126166385-chr5:126166838..126169789,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000113368	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs12514703	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12514978	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12515255	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12515582	0.82[CEU][hapmap]
rs12517303	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12518228	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs12520218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12522425	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12652390	1.00[MEX][hapmap]
rs12654808	1.00[MEX][hapmap]
rs12655223	1.00[MEX][hapmap]
rs12655991	1.00[MEX][hapmap]
rs12656537	1.00[JPT][hapmap]
rs12658174	1.00[MEX][hapmap]
rs17165305	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17165351	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17839709	0.86[AMR][1000 genomes]
rs17839711	0.86[AMR][1000 genomes]
rs2230151	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34364708	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3749830	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3812061	1.00[MEX][hapmap]
rs3812062	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs55637078	0.86[AMR][1000 genomes]
rs55784400	0.90[AMR][1000 genomes]
rs55924928	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56052550	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56366269	0.81[AMR][1000 genomes]
rs57778143	1.00[ASN][1000 genomes]
rs58103919	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58418743	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59395878	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs60107783	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs60818126	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61383192	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72780207	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72780210	0.81[AMR][1000 genomes]
rs72780211	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72780212	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72780213	1.00[ASN][1000 genomes]
rs72780215	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72780216	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72780217	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72780218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72780220	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72780222	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72780278	1.00[ASN][1000 genomes]
rs72780284	0.86[AMR][1000 genomes]
rs72798245	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72798246	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72798247	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72798249	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72798253	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72798255	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949054	chr5:125918148-126254480	Enhancers Genic enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv534292	chr5:125993451-126259315	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:126136000-126175200	Strong transcription	Dnd41	blood
2	chr5:126139800-126175400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr5:126140000-126175200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:126140000-126175400	Strong transcription	Fetal Thymus	thymus
5	chr5:126141000-126177400	Weak transcription	Small Intestine	intestine
6	chr5:126141200-126181800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr5:126141400-126174200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr5:126144400-126173200	Weak transcription	Esophagus	oesophagus
9	chr5:126146000-126183200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr5:126146000-126183600	Weak transcription	Left Ventricle	heart
11	chr5:126147800-126170400	Weak transcription	Stomach Mucosa	stomach
12	chr5:126147800-126171600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr5:126148200-126182400	Weak transcription	HSMMtube	muscle
14	chr5:126148200-126193200	Weak transcription	Brain Angular Gyrus	brain
15	chr5:126149200-126170000	Weak transcription	Aorta	Aorta
16	chr5:126149600-126181400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr5:126151200-126175200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr5:126151200-126175400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr5:126151400-126181400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr5:126151800-126175200	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr5:126152000-126172400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr5:126152200-126171200	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr5:126152200-126173800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr5:126152200-126175200	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr5:126153600-126175400	Strong transcription	Primary neutrophils fromperipheralblood	blood
26	chr5:126155800-126171200	Strong transcription	K562	blood
27	chr5:126156400-126171800	Strong transcription	Fetal Brain Female	brain
28	chr5:126157200-126171000	Strong transcription	Primary T cells from cord blood	blood
29	chr5:126158000-126204600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr5:126159400-126171200	Strong transcription	HepG2	liver
31	chr5:126160000-126171400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr5:126160600-126172400	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr5:126160600-126172600	Strong transcription	A549	lung
34	chr5:126161000-126172600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr5:126161800-126169400	Weak transcription	Lung	lung
36	chr5:126162600-126172200	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr5:126162600-126181200	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr5:126162800-126169400	Weak transcription	Adipose Nuclei	Adipose
39	chr5:126162800-126171600	Weak transcription	Gastric	stomach
40	chr5:126162800-126172600	Strong transcription	HUES6 Cell Line	embryonic stem cell
41	chr5:126162800-126172800	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr5:126162800-126173400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
43	chr5:126162800-126173600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr5:126162800-126176000	Weak transcription	Fetal Heart	heart
45	chr5:126162800-126182000	Weak transcription	Brain Anterior Caudate	brain
46	chr5:126163000-126170000	Strong transcription	HMEC	breast
47	chr5:126163000-126171000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
48	chr5:126163000-126171600	Strong transcription	H9 Cell Line	embryonic stem cell
49	chr5:126163000-126172600	Strong transcription	HUES48 Cell Line	embryonic stem cell
50	chr5:126163000-126173400	Strong transcription	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links