Variant report

Variant	rs17771806
Chromosome Location	chr22:32881581-32881582
allele	C/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	E2F4	chr22:32881496-32881696	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr22:32879087..32881935-chr22:32888210..32890953,3	K562	blood:
2	chr22:32879087..32881593-chr22:32888783..32892054,3	K562	blood:
3	22:32529813-32538538..22:32878464-32886640	K562	blood:

Variant related genes	Relation type
FBXO7	TF binding region
ENSG00000239674	Chromatin interaction
ENSG00000232707	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs11538371	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11703151	1.00[ASN][1000 genomes]
rs11703157	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11703361	1.00[ASN][1000 genomes]
rs11704047	1.00[ASN][1000 genomes]
rs11704805	1.00[ASN][1000 genomes]
rs11705134	1.00[ASN][1000 genomes]
rs11705637	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12166221	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12166224	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12166227	0.90[CEU][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16990574	0.85[MEX][hapmap];1.00[ASN][1000 genomes]
rs17691853	1.00[ASN][1000 genomes]
rs2710368	0.83[CEU][hapmap];1.00[ASN][1000 genomes]
rs28640241	1.00[ASN][1000 genomes]
rs28664874	1.00[ASN][1000 genomes]
rs34758535	1.00[ASN][1000 genomes]
rs5994568	1.00[ASN][1000 genomes]
rs5994580	1.00[ASN][1000 genomes]
rs5998523	1.00[ASN][1000 genomes]
rs61741510	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62232667	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62232668	0.82[EUR][1000 genomes]
rs62232669	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62232670	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62232671	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62232672	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62241172	1.00[ASN][1000 genomes]
rs62241174	1.00[ASN][1000 genomes]
rs62241175	1.00[ASN][1000 genomes]
rs62241176	1.00[ASN][1000 genomes]
rs62241181	1.00[ASN][1000 genomes]
rs62241183	1.00[ASN][1000 genomes]
rs62241249	1.00[ASN][1000 genomes]
rs62241250	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62241251	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62241252	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62241253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62241256	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62241257	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62241860	1.00[ASN][1000 genomes]
rs62241865	1.00[ASN][1000 genomes]
rs710175	0.84[CEU][hapmap];0.85[TSI][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73170329	1.00[ASN][1000 genomes]
rs73170376	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73170400	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8135445	1.00[ASN][1000 genomes]
rs8142304	0.95[CEU][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8142460	1.00[ASN][1000 genomes]
rs9606952	1.00[ASN][1000 genomes]
rs9606953	1.00[ASN][1000 genomes]
rs9621472	0.89[CEU][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9621473	0.95[CEU][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9621476	1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17771806	SEC14L4	cis	parietal	SCAN
rs17771806	LARGE	cis	parietal	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:32872000-32884400	Weak transcription	Pancreas	Pancrea
2	chr22:32872000-32884800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr22:32872000-32889000	Weak transcription	Gastric	stomach
4	chr22:32872000-32891000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr22:32872200-32882600	Weak transcription	Colonic Mucosa	Colon
6	chr22:32872200-32885200	Weak transcription	Stomach Mucosa	stomach
7	chr22:32872200-32886200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr22:32872200-32889000	Weak transcription	Fetal Brain Male	brain
9	chr22:32872200-32898200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr22:32872200-32898400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr22:32872200-32899600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr22:32873000-32882200	Weak transcription	Fetal Stomach	stomach
13	chr22:32873000-32889600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr22:32873000-32898000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr22:32873200-32881600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr22:32873200-32883400	Weak transcription	NHLF	lung
17	chr22:32874200-32882200	Weak transcription	Fetal Intestine Small	intestine
18	chr22:32874800-32896000	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr22:32874800-32896400	Strong transcription	Dnd41	blood
20	chr22:32875200-32883000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr22:32875200-32890400	Weak transcription	Aorta	Aorta
22	chr22:32875600-32884400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
23	chr22:32876000-32896400	Strong transcription	Primary monocytes fromperipheralblood	blood
24	chr22:32876600-32886200	Weak transcription	Right Ventricle	heart
25	chr22:32876600-32894800	Strong transcription	Primary B cells from peripheral blood	blood
26	chr22:32877000-32882000	Weak transcription	Psoas Muscle	Psoas
27	chr22:32877000-32896400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr22:32877200-32898000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr22:32877800-32890000	Strong transcription	Primary T cells from cord blood	blood
30	chr22:32877800-32895400	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr22:32878200-32896600	Strong transcription	Primary B cells from cord blood	blood
32	chr22:32878400-32882800	Strong transcription	Adipose Nuclei	Adipose
33	chr22:32878800-32883200	Strong transcription	Sigmoid Colon	Sigmoid Colon
34	chr22:32878800-32892000	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr22:32878800-32895200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr22:32878800-32895200	Strong transcription	Fetal Muscle Leg	muscle
37	chr22:32879000-32886200	Strong transcription	Fetal Kidney	kidney
38	chr22:32879200-32891200	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr22:32879200-32895400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr22:32879200-32896200	Strong transcription	Left Ventricle	heart
41	chr22:32879400-32882200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr22:32879400-32883800	Strong transcription	Primary hematopoietic stem cells	blood
43	chr22:32879400-32895200	Strong transcription	HepG2	liver
44	chr22:32879400-32896000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr22:32879400-32896200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr22:32879400-32896600	Strong transcription	Duodenum Mucosa	Duodenum
47	chr22:32879600-32881600	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr22:32879600-32882000	Genic enhancers	Brain Hippocampus Middle	brain
49	chr22:32879600-32882000	Strong transcription	NHDF-Ad	bronchial
50	chr22:32879600-32882800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links