Variant report

Variant	rs17376461
Chromosome Location	chr4:85594651-85594652
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	chr4:85592040..85594836-chr4:85597062..85599501,2	K562	blood:
2	chr4:85502162..85504984-chr4:85592839..85595521,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163624	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10516725	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs11726731	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11726744	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap]
rs11731505	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap]
rs11733678	1.00[ASN][1000 genomes]
rs11733881	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11939816	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs1443075	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs17009337	1.00[ASN][1000 genomes]
rs17367317	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap]
rs17367775	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17368157	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17368458	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17368902	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17375853	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap]
rs17376048	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs17376090	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap]
rs17376293	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17376489	0.97[EUR][1000 genomes]
rs17376946	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17377338	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17377352	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17377666	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34548715	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35767732	0.82[AFR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41524654	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs4569746	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes];1.00[ASN][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	esv1829655	chr4:85577491-86292692	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv532738	chr4:85590841-85777997	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85581800-85598200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:85581800-85598200	Weak transcription	Esophagus	oesophagus
3	chr4:85581800-85599000	Weak transcription	Spleen	Spleen
4	chr4:85582000-85595000	Weak transcription	NHLF	lung
5	chr4:85582000-85596200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr4:85582000-85598200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr4:85582800-85603000	Weak transcription	Small Intestine	intestine
8	chr4:85583000-85598000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr4:85583200-85596800	Weak transcription	Fetal Heart	heart
10	chr4:85586400-85602000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr4:85586800-85594800	Weak transcription	A549	lung
12	chr4:85586800-85602200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr4:85587400-85595200	Strong transcription	Cortex derived primary cultured neurospheres	brain
14	chr4:85587400-85595600	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr4:85587600-85602600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr4:85587600-85603400	Weak transcription	Primary hematopoietic stem cells	blood
17	chr4:85587800-85602600	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr4:85587800-85648400	Strong transcription	Primary neutrophils fromperipheralblood	blood
19	chr4:85588000-85595000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr4:85588000-85595600	Strong transcription	Placenta	Placenta
21	chr4:85588200-85598200	Weak transcription	Rectal Smooth Muscle	rectum
22	chr4:85588200-85599000	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr4:85588200-85602400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr4:85588400-85602400	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr4:85588600-85600400	Strong transcription	Adipose Nuclei	Adipose
26	chr4:85588800-85596200	Weak transcription	Pancreas	Pancrea
27	chr4:85588800-85602600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr4:85589200-85594800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
29	chr4:85589200-85595800	Strong transcription	HUES6 Cell Line	embryonic stem cell
30	chr4:85589200-85598200	Strong transcription	Fetal Muscle Leg	muscle
31	chr4:85589200-85603000	Strong transcription	Fetal Muscle Trunk	muscle
32	chr4:85589400-85602000	Strong transcription	Fetal Intestine Large	intestine
33	chr4:85589400-85609800	Strong transcription	Fetal Brain Female	brain
34	chr4:85589600-85603000	Strong transcription	Liver	Liver
35	chr4:85589600-85604800	Weak transcription	Psoas Muscle	Psoas
36	chr4:85589800-85596400	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr4:85590200-85603000	Strong transcription	Fetal Lung	lung
38	chr4:85590600-85595000	Weak transcription	Fetal Stomach	stomach
39	chr4:85590600-85595400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr4:85590800-85595200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
41	chr4:85591000-85598000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr4:85591400-85595200	Strong transcription	HUES48 Cell Line	embryonic stem cell
43	chr4:85591600-85595600	Strong transcription	Brain Hippocampus Middle	brain
44	chr4:85591800-85598400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr4:85592200-85613200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr4:85592400-85594800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr4:85592400-85602200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr4:85592800-85595400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr4:85593000-85595200	Strong transcription	Brain Cingulate Gyrus	brain
50	chr4:85593200-85595600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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