Variant report

Variant	rs35309200
Chromosome Location	chr4:15560750-15560751
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:15558536..15560795-chr4:15564157..15566350,2	K562	blood:
2	chr4:15555076..15558141-chr4:15558496..15561165,3	K562	blood:

Variant related genes	Relation type
ENSG00000273133	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1154577	0.84[ASN][1000 genomes]
rs13106528	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13114491	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13122812	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13127507	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13131119	0.84[ASN][1000 genomes]
rs13131285	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13131606	0.81[ASN][1000 genomes]
rs13138894	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13141724	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13144428	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1468735	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1468736	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16892143	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16892156	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17476670	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17476831	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2041672	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2041673	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3182730	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34155734	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34427409	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34599140	1.00[ASN][1000 genomes]
rs34831330	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34924677	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35151159	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35196224	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35258636	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35461787	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35724720	0.84[ASN][1000 genomes]
rs36012186	0.84[ASN][1000 genomes]
rs4267734	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4326008	1.00[ASN][1000 genomes]
rs4613560	1.00[ASN][1000 genomes]
rs57275698	0.84[ASN][1000 genomes]
rs6449150	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs66472670	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67047740	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67089836	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67222859	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67224550	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6825051	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6825815	0.84[ASN][1000 genomes]
rs6834359	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73237149	0.84[ASN][1000 genomes]
rs73237151	0.84[ASN][1000 genomes]
rs7699180	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2757923	chr4:15444617-15749520	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv2759227	chr4:15444617-15749520	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv428439	chr4:15556961-15749520	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats 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	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15487400-15570400	Weak transcription	Psoas Muscle	Psoas
2	chr4:15502800-15577600	Weak transcription	Right Ventricle	heart
3	chr4:15509200-15564400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr4:15512000-15580000	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr4:15513000-15562400	Weak transcription	Primary B cells from cord blood	blood
6	chr4:15517800-15593600	Weak transcription	HUVEC	blood vessel
7	chr4:15520000-15572400	Weak transcription	Small Intestine	intestine
8	chr4:15537200-15565000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr4:15537400-15621000	Weak transcription	Hela-S3	cervix
10	chr4:15539000-15570400	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr4:15540200-15561600	Weak transcription	HMEC	breast
12	chr4:15540200-15561600	Weak transcription	NHEK	skin
13	chr4:15540200-15562600	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr4:15540400-15563200	Weak transcription	Brain Substantia Nigra	brain
15	chr4:15540400-15565000	Weak transcription	NHDF-Ad	bronchial
16	chr4:15543800-15570600	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr4:15544400-15562400	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr4:15544600-15563600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr4:15544800-15571600	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr4:15544800-15576200	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr4:15545000-15575600	Weak transcription	Fetal Heart	heart
22	chr4:15546000-15589600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr4:15546200-15564400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr4:15546200-15569400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr4:15546400-15572600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr4:15546800-15569200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr4:15548800-15570800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr4:15549400-15565600	Weak transcription	Primary T cells from cord blood	blood
29	chr4:15549600-15564400	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr4:15549600-15570800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr4:15550000-15617800	Weak transcription	Thymus	Thymus
32	chr4:15554000-15563600	Strong transcription	Stomach Smooth Muscle	stomach
33	chr4:15554000-15572800	Strong transcription	Fetal Brain Female	brain
34	chr4:15554600-15560800	Strong transcription	Adipose Nuclei	Adipose
35	chr4:15554600-15601400	Weak transcription	A549	lung
36	chr4:15554800-15561400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr4:15555000-15562400	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr4:15555000-15566800	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr4:15555600-15563200	Weak transcription	Brain Cingulate Gyrus	brain
40	chr4:15555800-15565000	Weak transcription	Placenta	Placenta
41	chr4:15555800-15569200	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr4:15555800-15589400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr4:15556000-15569200	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr4:15556000-15603200	Weak transcription	Fetal Thymus	thymus
45	chr4:15556400-15561000	Strong transcription	Fetal Lung	lung
46	chr4:15557000-15564600	Weak transcription	Gastric	stomach
47	chr4:15557200-15561200	Strong transcription	NH-A	brain
48	chr4:15557200-15562600	Weak transcription	Left Ventricle	heart
49	chr4:15557400-15564400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr4:15557400-15566600	Weak transcription	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links