Variant report

Variant	rs35797826
Chromosome Location	chr13:76194004-76194005
allele	A/G
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	GATA3	chr13:76193999-76194772	SK-N-SH	brain:	n/a	chr13:76194567-76194577 chr13:76194562-76194573

Variant related genes	Relation type
LMO7	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs12859594	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12859711	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12861744	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12861774	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12865529	0.83[EUR][1000 genomes]
rs12866747	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12870619	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12871445	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17064647	0.83[EUR][1000 genomes]
rs2031234	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34072684	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34241221	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34407556	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34949196	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35132045	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35132275	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35352582	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35556048	0.83[EUR][1000 genomes]
rs35596538	0.83[EUR][1000 genomes]
rs35631959	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35680815	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35853105	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35901810	0.85[EUR][1000 genomes]
rs4885310	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4885311	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4885315	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4885327	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6562910	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6562911	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs66635712	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs66808557	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs67051742	0.83[EUR][1000 genomes]
rs67270540	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs67656352	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs68017902	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs68044755	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs68052366	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7321611	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7324560	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7325969	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7337186	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7986201	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9543962	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900571	chr13:76123678-76207565	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv900577	chr13:76132484-76207565	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	esv2751152	chr13:76144199-76288418	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:76125000-76209600	Weak transcription	Right Ventricle	heart
2	chr13:76144200-76194400	Weak transcription	Stomach Smooth Muscle	stomach
3	chr13:76148200-76203000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr13:76148200-76209600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr13:76149800-76209600	Weak transcription	Lung	lung
6	chr13:76158600-76195200	Weak transcription	NHEK	skin
7	chr13:76159000-76194600	Weak transcription	HUVEC	blood vessel
8	chr13:76159000-76209600	Weak transcription	Brain Hippocampus Middle	brain
9	chr13:76159400-76201800	Weak transcription	Fetal Lung	lung
10	chr13:76164600-76194600	Weak transcription	Aorta	Aorta
11	chr13:76164600-76209400	Weak transcription	Esophagus	oesophagus
12	chr13:76165200-76209200	Weak transcription	Fetal Muscle Leg	muscle
13	chr13:76166800-76202000	Weak transcription	Fetal Brain Female	brain
14	chr13:76170800-76209600	Weak transcription	Primary B cells from peripheral blood	blood
15	chr13:76174600-76198200	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr13:76174600-76201400	Weak transcription	Psoas Muscle	Psoas
17	chr13:76176800-76199400	Weak transcription	Placenta	Placenta
18	chr13:76177600-76209400	Weak transcription	Left Ventricle	heart
19	chr13:76177600-76209600	Weak transcription	Fetal Stomach	stomach
20	chr13:76180000-76209600	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr13:76180600-76204000	Weak transcription	GM12878-XiMat	blood
22	chr13:76180800-76204600	Weak transcription	Dnd41	blood
23	chr13:76180800-76209200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr13:76180800-76209200	Weak transcription	Adipose Nuclei	Adipose
25	chr13:76180800-76209600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr13:76181000-76194600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr13:76181000-76209400	Weak transcription	Fetal Thymus	thymus
28	chr13:76181000-76209600	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr13:76181000-76209600	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr13:76181200-76194400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr13:76181200-76198200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr13:76181200-76209400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr13:76181200-76209600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr13:76181400-76199600	Weak transcription	Primary B cells from cord blood	blood
35	chr13:76181400-76199600	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr13:76181600-76194600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr13:76181600-76207400	Weak transcription	HMEC	breast
38	chr13:76182200-76198200	Weak transcription	Primary hematopoietic stem cells	blood
39	chr13:76182800-76194200	Weak transcription	NH-A	brain
40	chr13:76182800-76209400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr13:76183000-76194400	Weak transcription	Fetal Heart	heart
42	chr13:76187400-76198000	Weak transcription	Primary T cells from cord blood	blood
43	chr13:76189600-76209400	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr13:76190600-76209600	Weak transcription	Brain Angular Gyrus	brain
45	chr13:76191000-76201200	Weak transcription	Brain Anterior Caudate	brain
46	chr13:76191600-76201400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr13:76192000-76194200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr13:76192000-76194800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr13:76192000-76209600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr13:76192200-76209400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links